Publications by authors named "Weihua Su"

29 Publications

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The CaCA superfamily genes in Saccharum: comparative analysis and their functional implications in response to biotic and abiotic stress.

BMC Genomics 2021 Jul 18;22(1):549. Epub 2021 Jul 18.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, 350002, Fuzhou, Fujian, China.

Background: In plants, Calcium (Ca) acts as a universal messenger in various signal transduction pathways, including responses to biotic and abiotic stresses and regulation of cellular and developmental processes. The Ca/cation antiporter (CaCA) superfamily proteins play vital roles in the transport of Ca and/or other cations. However, the characteristics of these superfamily members in Saccharum and their evolutionary and functional implications have remained unclear.

Results: A total of 34 CaCA genes in Saccharum spontaneum, 5 CaCA genes in Saccharum spp. R570, and 14 CaCA genes in Sorghum bicolor were identified and characterized. These genes consisted of the H/cation exchanger (CAX), cation/Ca exchanger (CCX), EF-hand / CAX (EFCAX), and Mg/H exchanger (MHX) families, among which the CCX and EFCAX could be classified into three groups while the CAX could be divided into two groups. The exon/intron structures and motif compositions suggested that the members in the same group were highly conserved. Synteny analysis of CaCAs established their orthologous and paralogous relationships among the superfamily in S. spontaneum, R570, and S. bicolor. The results of protein-protein interactions indicated that these CaCA proteins had direct or indirect interactions. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis demonstrated that most members of Saccharum CaCA genes exhibited a similar expression pattern in response to hormonal (abscisic acid, ABA) treatment but played various roles in response to biotic (Sporisorium scitamineum) and abiotic (cold) stresses. Furthermore, ScCAX4, a gene encoding a cytoplasm, plasma membrane and nucleus positioning protein, was isolated from sugarcane. This gene was constitutively expressed in different sugarcane tissues and its expression was only induced at 3 and 6 h time points after ABA treatment, however was inhibited and indued in the whole process under cold and S. scitamineum stresses, respectively.

Conclusions: This study systematically conducted comparative analyses of CaCA superfamily genes among S. spontaneum, R570, and S. bicolor, delineating their sequence and structure characteristics, classification, evolutionary history, and putative functions. These results not only provided rich gene resources for exploring the molecular mechanism of the CaCA superfamily genes but also offered guidance and reference for research on other gene families in Saccharum.
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http://dx.doi.org/10.1186/s12864-021-07828-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8286586PMC
July 2021

Genome-wide identification, characterization and expression analysis of the carotenoid cleavage oxygenase (CCO) gene family in Saccharum.

Plant Physiol Biochem 2021 May 3;162:196-210. Epub 2021 Mar 3.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China; Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China. Electronic address:

Carotenoid cleavage oxygenases (CCOs) play crucial roles in plant growth and development, as well as in the response to phytohormonal, biotic and abiotic stresses. However, comprehensive and systematic research on the CCO gene family has not yet been conducted in Saccharum. In this study, 47 SsCCO and 14 ShCCO genes were identified and characterized in Saccharum spontaneum and Saccharum spp. R570 cultivar, respectively. The SsCCOs consisted of 38 SsCCDs and 9 SsNCEDs, while ShCCOs contained 11 ShCCDs and 3 ShNCEDs. The SsCCO family could be divided into 7 groups, while ShCCO family into 5 groups. The genes/proteins contained similar compositions within the same group, and the evolutionary mechanisms differed between S. spontaneum and R570. Gene Ontology annotation implied that CCOs were involved in many physiological and biochemical processes. Additionally, 41 SsCCOs were regulated by 19 miRNA families, and 8 ShCCOs by 9 miRNA families. Cis-regulatory elements analysis suggested that CCO genes functioned in the process of growth and development or under the phytohormonal, biotic and abiotic stresses. qRT-PCR analysis indicated that nine CCO genes from different groups exhibited similar expression patterns under abscisic acid treatment, while more divergent profiles were observed in response to Sporisorium scitamineum and cold stresses. Herein, comparative genomics analysis of the CCO gene family between S. spontaneum and R570 was conducted to investigate its evolution and functions. This is the first report on the CCO gene family in S. spontaneum and R570, thus providing valuable information and facilitating further investigation into its function in the future.
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http://dx.doi.org/10.1016/j.plaphy.2021.02.041DOI Listing
May 2021

New insights into the evolution and functional divergence of the CIPK gene family in Saccharum.

BMC Genomics 2020 Dec 7;21(1):868. Epub 2020 Dec 7.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Calcineurin B-like protein (CBL)-interacting protein kinases (CIPKs) are the primary components of calcium sensors, and play crucial roles in plant developmental processes, hormone signaling transduction, and in the response to exogenous stresses.

Results: In this study, 48 CIPK genes (SsCIPKs) were identified from the genome of Saccharum spontaneum. Phylogenetic reconstruction suggested that the SsCIPK gene family may have undergone six gene duplication events from the last common ancestor (LCA) of SsCIPKs. Whole-genome duplications (WGDs) served as the driving force for the amplification of SsCIPKs. The Nonsynonymous to synonymous substitution ratio (Ka/Ks) analysis showed that the duplicated genes were possibly under strong purifying selection pressure. The divergence time of these duplicated genes had an average duplication time of approximately 35.66 Mya, suggesting that these duplication events occurred after the divergence of the monocots and eudicots (165 Mya). The evolution of gene structure analysis showed that the SsCIPK family genes may involve intron losses. Ten ScCIPK genes were amplified from sugarcane (Saccharum spp. hybrids). The results of real-time quantitative polymerase chain reaction (qRT-PCR) demonstrated that these ten ScCIPK genes had different expression patterns under abscisic acid (ABA), polyethylene glycol (PEG), and sodium chloride (NaCl) stresses. Prokaryotic expression implied that the recombinant proteins of ScCIPK3, - 15 and - 17 could only slightly enhance growth under salinity stress conditions, but the ScCIPK21 did not. Transient N. benthamiana plants overexpressing ScCIPKs demonstrated that the ScCIPK genes were involved in responding to external stressors through the ethylene synthesis pathway as well as to bacterial infections.

Conclusions: In generally, a comprehensive genome-wide analysis of evolutionary relationship, gene structure, motif composition, and gene duplications of SsCIPK family genes were performed in S. spontaneum. The functional study of expression patterns in sugarcane and allogenic expressions in E. coli and N. benthamiana showed that ScCIPKs played various roles in response to different stresses. Thus, these results improve our understanding of the evolution of the CIPK gene family in sugarcane as well as provide a basis for in-depth functional studies of CIPK genes in sugarcane.
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http://dx.doi.org/10.1186/s12864-020-07264-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7720545PMC
December 2020

A class III WRKY transcription factor in sugarcane was involved in biotic and abiotic stress responses.

Sci Rep 2020 12 1;10(1):20964. Epub 2020 Dec 1.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.

WRKY transcription factors play significant roles in plant stress responses. In this study, a class III WRKY gene ScWRKY5, was successfully isolated from sugarcane variety ROC22. The ScWRKY5 was a nucleus protein with transcriptional activation activity. The ScWRKY5 gene was constitutively expressed in all the sugarcane tissues, with the highest expression level in the stem epidermis and the lowest in the root. After inoculation with Sporisorium scitamineum for 1 d, the expression level of ScWRKY5 was significantly increased in two smut-resistant varieties (YZ01-1413 and LC05-136), while it was decreased in three smut-susceptible varieties (ROC22, YZ03-103, and FN40). Besides, the expression level of ScWRKY5 was increased by the plant hormones salicylic acid (SA) and abscisic acid (ABA), as well as the abiotic factors polyethylene glycol (PEG) and sodium chloride (NaCl). Transient overexpression of the ScWRKY5 gene enhanced the resistance of Nicotiana benthamiana to the tobacco bacterial pathogen Ralstonia solanacearum, however the transiently overexpressed N. benthamiana was more sensitive to the tobacco fungal pathogen Fusarium solani var. coeruleum. These results provide a reference for further research on the resistance function of sugarcane WRKY genes.
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http://dx.doi.org/10.1038/s41598-020-78007-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7708483PMC
December 2020

Evaluation of reference genes for quantitative real-time PCR normalization in the scarab beetle Holotrichia oblita.

PLoS One 2020 21;15(10):e0240972. Epub 2020 Oct 21.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei, Anhui, China.

Quantitative real-time polymerase chain reaction (qPT-PCR) is commonly used to analyze gene expression, however, the accuracy of the normalized results is affected by the expression stability of reference genes. Holotrichia oblita (Coleoptera: Scarabaeidae) causes serious damage to crops. Reliable reference genes in H. oblita are needed for qRT-PCR analysis. Therefore, we evaluated 13 reference genes under biotic and abiotic conditions. RefFinder provided a comprehensive stability ranking, and geNorm suggested the optimal number of reference genes for normalization. RPL13a and RPL18 were the most suitable reference genes for developmental stages, tissues, and temperature treatments; RPL13a and RPS3 were the most suitable for pesticide and photoperiod treatments; RPS18 and RPL18 were the most suitable for the two sexes. We validated the normalized results using odorant-binding protein genes as target genes in different tissues. Compared with the selected suitable reference genes, the expression of OBP1 in antennae, abdomen, and wings, and OBP2 in antennae and wings were overestimated due to the instability of ACTb. These results identified several reliable reference genes in H. oblita for normalization, and are valuable for future molecular studies.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0240972PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7577503PMC
December 2020

ScAOC1, an allene oxide cyclase gene, confers defense response to biotic and abiotic stresses in sugarcane.

Plant Cell Rep 2020 Dec 1;39(12):1785-1801. Epub 2020 Oct 1.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.

Key Message: An allene oxide cyclase gene which is involved in defense against biotic and abiotic stresses was cloned and characterized in sugarcane. Allene oxide cyclase (AOC), a key enzyme in jasmonate acid (JA) biosynthesis, affects the stereoisomerism and biological activity of JA molecules, and plays an important role in plant stress resistance. In this study, four SsAOC alleles (SsAOC1-SsAOC4), which shared similar gene structure and were located on Chr1A, Chr1B, Chr1C, and Chr1D, respectively, were mined from sugarcane wild species Saccharum spontaneum, and a homologous gene ScAOC1 (GenBank Accession Number: MK674849) was cloned from sugarcane hybrid variety Yacheng05-179 inoculated with Sporisorium scitamineum for 48 h. ScAOC1 and SsAOC1-SsAOC4 were alkaline, unstable, hydrophilic, and non-secretory proteins, which possess the same set of conserved motifs and were clustered into one group in the phylogenetic analysis. ScAOC1 was expressed in all sugarcane tissues, but with different levels. After infection by S. scitamineum, the transcripts of ScAOC1 were increased significantly both in the smut-susceptible (ROC22) and resistant (Yacheng05-179) varieties, but its transcripts were more accumulated and lasted for a longer period in the smut-resistant variety than in the smut-susceptible one. ScAOC1 was down-regulated under MeJA and NaCl treatments, but up-regulated under SA, ABA, PEG, and cold stresses. Transiently overexpressing ScAOC1 gene into Nicotiana benthamiana leaves regulated the responses of N. benthamiana to two pathogens Ralstonia solanacearum and Fusarium solani var. coeruleum. Furthermore, prokaryotic expression analysis showed overexpression of ScAOC1 in Escherichia coli BL21 could enhance its tolerance to NaCl, mannitol, and cold stimuli. These results indicated that ScAOC1 may play an active role in response to biotic and abiotic stresses in sugarcane.
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http://dx.doi.org/10.1007/s00299-020-02606-zDOI Listing
December 2020

The alcohol dehydrogenase gene family in sugarcane and its involvement in cold stress regulation.

BMC Genomics 2020 Jul 29;21(1):521. Epub 2020 Jul 29.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.

Background: Alcohol dehydrogenases (ADHs) in plants are encoded by a multigene family. ADHs participate in growth, development, and adaptation in many plant species, but the evolution and function of the ADH gene family in sugarcane is still unclear.

Results: In the present study, 151 ADH genes from 17 species including 32 ADH genes in Saccharum spontaneum and 6 ADH genes in modern sugarcane cultivar R570 were identified. Phylogenetic analysis demonstrated two groups of ADH genes and suggested that these genes underwent duplication during angiosperm evolution. Whole-genome duplication (WGD)/segmental and dispersed duplications played critical roles in the expansion of ADH family in S. spontaneum and R570, respectively. ScADH3 was cloned and preferentially expressed in response to cold stress. ScADH3 conferred improved cold tolerance in E. coli cells. Ectopic expression showed that ScADH3 can also enhance cold tolerance in transgenic tobacco. The accumulation of reactive oxygen species (ROS) in leaves of transgenic tobacco was significantly lower than in wild-type tobacco. The transcript levels of ROS-related genes in transgenic tobacco increased significantly. ScADH3 seems to affect cold tolerance by regulating the ROS-related genes to maintain the ROS homeostasis.

Conclusions: This study depicted the size and composition of the ADH gene family in 17 species, and investigated their evolution pattern. Comparative genomics analysis among the ADH gene families of S. bicolor, R570 and S. spontaneum revealed their close evolutionary relationship. Functional analysis suggested that ScADH3, which maintained the steady state of ROS by regulating ROS-related genes, was related to cold tolerance. These findings will facilitate research on evolutionary and functional aspects of the ADH genes in sugarcane, especially for the understanding of ScADH3 under cold stress.
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http://dx.doi.org/10.1186/s12864-020-06929-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7392720PMC
July 2020

Sugarcane calcineurin B-like (CBL) genes play important but versatile roles in regulation of responses to biotic and abiotic stresses.

Sci Rep 2020 01 13;10(1):167. Epub 2020 Jan 13.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture/National Engineering Research Center for Sugarcane, Ministry of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Free calcium ions are common second messengers in plant cells. The calcineurin B-like protein (CBL) is a special calcium sensor that plays an important role in plant growth and stress response. In this study, we obtained three CBL genes (GenBank accession nos. KX013374, KX013375, and KX013376) from sugarcane variety ROC22. The open reading frames of ScCBL genes ranged from 642 to 678 base pairs in length and encoded polypeptides from 213 to 225 amino acids in length. ScCBL2-1, ScCBL3-1, and ScCBL4 were all located in the plasma membrane and cytoplasm. ScCBL2-1 and ScCBL3-1 expression was up-regulated by treatment with salicylic acid (SA), methyl jasmonate (MeJA), hydrogen peroxide (HO), polyethylene glycol (PEG), sodium chloride (NaCl), or copper chloride (CuCl). ScCBL4 expression was down-regulated in response to all of these stresses (abscisic acid (ABA), SA, MeJA, and NaCl) except for HO, calcium chloride (CaCl), PEG, and CuCl. Expression in Escherichia coli BL21 cells showed that ScCBLs can enhance tolerance to NaCl or copper stress. Overexpression of ScCBLs in Nicotiana benthamiana leaves promoted their resistance to infection with the tobacco pathogen Ralstonia solanacearum. The results from the present study facilitate further research regarding ScCBL genes, and in particular, their roles in the response to various stresses in sugarcane.
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http://dx.doi.org/10.1038/s41598-019-57058-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6957512PMC
January 2020

Transcriptome Analysis and Identification of Insecticide Tolerance-Related Genes after Exposure to Insecticide in .

Genes (Basel) 2019 11 20;10(12). Epub 2019 Nov 20.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, Anhui Province, China.

Aphids cause serious losses to the production of wheat. The grain aphid, Sitobion avenae, which is the dominant species of aphid in all wheat regions of China, is resistant to a variety of insecticides, including imidacloprid and chlorpyrifos. However, the resistance and mechanism of insecticide tolerance of S. avenae are still unclear. Therefore, this study employed transcriptome analysis to compare the expression patterns of stress response genes under imidacloprid and chlorpyrifos treatment for 15 min, 3 h, and 36 h of exposure. S. avenae adult transcriptome was assembled and characterized first, after which samples treated with insecticides for different lengths of time were compared with control samples, which revealed 602267 differentially expressed unigenes (DEUs). Among these DEUs, 31-790 unigenes were classified into 66-786 categories of gene ontology (GO) functional groups, and 24-760 DEUs could be mapped into 54-268 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Finally, 11 insecticide-tolerance-related unigenes were chosen to confirm the relative expression by quantitative real-time polymerase chain reaction (qRT-PCR) in each treatment. Most of the results between qRT-PCR and RNA sequencing (RNA-Seq) are well-established. The results presented herein will facilitate molecular research investigating insecticide resistance in S. avenae, as well as in other wheat aphids.
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http://dx.doi.org/10.3390/genes10120951DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6947367PMC
November 2019

Survey of the Transcriptome Using PacBio Single-Molecule Long-Read Sequencing.

Genes (Basel) 2019 06 25;10(6). Epub 2019 Jun 25.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, China.

The damage caused by is the main factor threatening the production of vegetables in the Liliaceae family. However, few genetic studies of have been conducted because of a lack of genomic resources. Many long-read sequencing technologies have been developed in the last decade; therefore, in this study, the transcriptome including all development stages of was sequenced for the first time by Pacific single-molecule long-read sequencing. Here, 39,129 isoforms were generated, and 35,645 were found to have annotation results when checked against sequences available in different databases. Overall, 18,473 isoforms were distributed in 25 various Clusters of Orthologous Groups, and 11,880 isoforms were categorized into 60 functional groups that belonged to the three main Gene Ontology classifications. Moreover, 30,610 isoforms were assigned into 44 functional categories belonging to six main Kyoto Encyclopedia of Genes and Genomes functional categories. Coding DNA sequence (CDS) prediction showed that 36,419 out of 39,129 isoforms were predicted to have CDS, and 4319 simple sequence repeats were detected in total. Finally, 266 insecticide resistance and metabolism-related isoforms were identified as candidate genes for further investigation of insecticide resistance and metabolism in .
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http://dx.doi.org/10.3390/genes10060481DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6627194PMC
June 2019

Photocatalytic antibacterial agent incorporated double-network hydrogel for wound healing.

Colloids Surf B Biointerfaces 2019 Aug 27;180:237-244. Epub 2019 Apr 27.

School of Chemistry and Chemical Engineering, Shihezi University/Key Laboratory for Green Processing of Chemical Engineering of Xinjiang Bingtuan/Key Laboratory of Materials-Oriented Chemical Engineering of Xinjiang Uygur Autonomous Region/Engineering Research Center of Materials-Oriented Chemical Engineering of Xinjiang Bingtuan, Shihezi, Xinjiang, 832003, PR China; State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai, 200237, PR China.

A novel antibacterial hydrogel was prepared through the addition of IT to a chitin (CT) and polyvinyl alcohol (PVA) hydrogel, creating a promising material for wound dressings. The addition of nano particles IT endowed the anti-bacterial activity of hydrogel as well as had a positive impact on the mechanical properties of the hydrogels. The structure of the prepared hydrogel dressing was characterized by FTIR, XPS, XRD, SEM and TEM. The composite hydrogel exhibited excellent anti-bacterial activity under the visible light. Cytotoxicity tests (L929 fibroblast cells) showed all samples achieving up to 80% cell viability. Furthermore, compared with conventional dressings, wound healing test revealed that CT/PVA/IT hydrogel could accelerated wound healing in vivo, wound closure rates reached 95.5% after 10 days. This study suggests that the novel hydrogel has considerable potential for applications in wound dressings.
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http://dx.doi.org/10.1016/j.colsurfb.2019.04.043DOI Listing
August 2019

Synthesis and characterization of gold nanoparticles from aqueous leaf extract of Alternanthera sessilis and its anticancer activity on cervical cancer cells (HeLa).

Artif Cells Nanomed Biotechnol 2019 Dec;47(1):1173-1180

d Department of Gynaecology , The Affiliated Hospital of Shandong University of TCM , Jinan , Shandong , China.

Cervical cancer is the third most common highest mortality in women worldwide. The use of standard chemotherapeutic drugs against cervical cancer patients received several side effects. Therefore, we focused phytoconsituents-mediated synthesis of gold nanoparticles (AuNPs) considered as greatest attention in the treatment of cervical cancer. In this present study, we reported that green synthesis of AuNPs by using with Alternanthera Sessilis aqueous extract. Synthesis of AuNPs were characterized by UV visible spectroscopy, energy dispersive X-ray (EDX), selected area diffraction pattern (SAED), Fourier transform infrared spectroscopy (FTIR), high-resolution transmission electron microscopy (HR-TEM) and atomic force microscope. Synthesized AuNPs confirmed by the UV absorption maximum at 535 and crystal structure of gold AuNPs was further confirmed by EDX and SAED. TEM and atomic force microscopy images show the size and morphological distribution of nanoparticles. FTIR analysis was confirmed the hydroxyl groups, amine and alkaline groups of biomolecules are present in the AuNPs. Moreover, AuNPs induce cytotoxicity in cervical cancer cells and also induce apoptosis through modulating intrinsic apoptotic mechanisms in cervical cancer cells. This green synthesis of AuNPs from Alternanthera sessilis approach was easy, large scaled up and eco-friendly.
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http://dx.doi.org/10.1080/21691401.2018.1549064DOI Listing
December 2019

Genome-wide analysis of developmental stage-specific transcriptome in Bradysia odoriphaga.

Comp Biochem Physiol Part D Genomics Proteomics 2019 06 10;30:45-54. Epub 2019 Feb 10.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, Anhui Province, China. Electronic address:

Bradysia odoriphaga is a serious pest of the Chinese chive; however, detailed information regarding the developmental stage-specific gene expression patterns of B. odoriphaga is not yet available. In this study, RNA sequencing (RNA-seq) was performed to determine the gene expression patterns of developmental stages including the eggs, second instar larvae, fourth instar larvae, pupae, and adults of B. odoriphaga. Analysis of 15 samples revealed an average of 89.56% of the clean reads could be mapped onto the assembled UniGene database. Cluster tree analysis showed that the expression patterns were stage-specific and that samples of the second and fourth instar larvae clustered in one group, while those of eggs, pupae, and adults clustered in another group. Differential expression unigenes (DEUs) for sequential developmental stages were between 3314 and 10,632. A total of 1910-7756 DEUs of sequential developmental stages were assigned into 45-56 gene ontology categories and 1165-3845 DEUs were mapped into Kyoto Encyclopedia of Genes and Genomes pathways. The expression of DEUs related to growth and development showed that hormone receptors highly expressed in the pupal stage, while chitinases were highly expressed in the larval stage. The results of quantitative real time polymerase chain reaction (qRT-PCR) and RNA-seq expression agreed well for 12 growth- and development-related unigenes. This study identified DEUs for sequential developmental stages of B. odoriphaga. Gene Ontology classifications and KEGG pathway identification of DEUs not only provide information useful for understanding insect growth and development but also for exploring novel approaches to control B. odoriphaga.
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http://dx.doi.org/10.1016/j.cbd.2019.02.003DOI Listing
June 2019

A dynamic degradome landscape on miRNAs and their predicted targets in sugarcane caused by Sporisorium scitamineum stress.

BMC Genomics 2019 Jan 18;20(1):57. Epub 2019 Jan 18.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Sugarcane smut is a fungal disease caused by Sporisorium scitamineum. Cultivation of smut-resistant sugarcane varieties is the most effective way to control this disease. The interaction between sugarcane and S. scitamineum is a complex network system. However, to date, there is no report on the identification of microRNA (miRNA) target genes of sugarcane in response to smut pathogen infection by degradome technology.

Results: TaqMan qRT-PCR detection and enzyme activity determination showed that S. scitamineum rapidly proliferated and incurred significant enzyme activity changes in the reactive oxygen species metabolic pathway and phenylpropanoid metabolic pathway at 2 d and 5 d after inoculation, which was the best time points to study target gene degradation during sugarcane and S. scitamineum interaction. A total of 122.33 Mb of raw data was obtained from degradome sequencing analysis of YC05-179 (smut-resistant) and ROC22 (smut-susceptible) after inoculation. The Q30 of each sample was > 93%, and the sequence used for degradation site analysis exactly matched the sugarcane reference sequence. A total of 309 target genes were predicted in sugarcane, corresponding to 97 known miRNAs and 112 novel miRNAs, and 337 degradation sites, suggesting that miRNAs can efficiently direct cleavage at multiple sites in the predicted target mRNAs. Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis indicated that the predicted target genes were involved in various regulatory processes, such as signal transduction mechanisms, inorganic ion transport and metabolism, defense mechanisms, translation, posttranslational modifications, energy production and conversion, and glycerolipid metabolism. qRT-PCR analysis of the expression level of 13 predicted target genes and their corresponding miRNAs revealed that there was no obvious negative regulatory relationship between miRNAs and their target genes. In addition, a number of putative resistance-related target genes regulated by miRNA-mediated cleavage were accumulated in sugarcane during S. scitamineum infection, suggesting that feedback regulation of miRNAs may be involved in the response of sugarcane to S. scitamineum infection.

Conclusions: This study elucidates the underlying response of sugarcane to S. scitamineum infection, and also provides a resource for miRNAs and their predicted target genes for smut resistance improvement in sugarcane.
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http://dx.doi.org/10.1186/s12864-018-5400-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6339412PMC
January 2019

Transcriptional analysis identifies major pathways as response components to Sporisorium scitamineum stress in sugarcane.

Gene 2018 Dec 9;678:207-218. Epub 2018 Aug 9.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China; Key Laboratory of Crop Genetics and Breeding and Comprehensive Utilization, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China. Electronic address:

Background: Sugarcane smut, which is caused by Sporisorium scitamineum, is a severe fungal disease affecting sugarcane. However, the major pathways involved in the interaction between sugarcane and S. scitamineum remains unclear.

Results: In the present study, suppression subtractive hybridization (SSH) library construction, together with reverse northern blotting, was conducted on the most prevalent sugarcane genotype ROC22 challenged with S. scitamineum. After alignment and homologous expressed sequence tag (EST) assembly, a total of 155 differentially expressed unigenes were identified from SSH libraries. Totally, 26 of 155 differentially expressed unigenes were analyzed by qRT-PCR in sugarcane smut-resistant genotype YC05-179 and susceptible genotype ROC22. Genes encoded two unknown protein (Q1 and Q11), serine/threonine kinase (Q2), fiber protein (Q3), eukaryotic translation initiation factor 5A (Q23), and Sc14-3-3-like protein (Q24) were induced in sugarcane smut-resistant genotype YC05-179 but inhibited in susceptible genotype ROC22. Based on the differential expression data achieved from SSH libraries and qRT-PCR, we found that, serine/threonine kinases, Ca sensors, mitogen-activated protein genes and some NBS-LRR genes may involve in the signal recognition and transduction of smut fungus infection in sugarcane. While in the plant hormone signaling pathways, the genes related to auxin, abscisic acid, salicylic acid and ethylene were more apparently in response to smut fungus invasion. The hypersensitive response, protein metabolism, polyamine synthesis, and cell wall formation may play an important role in sugarcane defense against smut fungus colonization. Additionally, the Sc14-3-3 might serve as a molecular modulator in sugarcane being immune to smut disease by interacting with proteins like ScGAPN (Q10), which have been further verified by BiFC assay.

Conclusions: The findings of the present study could provide a general view about gene pathways involving in sugarcane defense against smut disease and facilitate a better understanding of the molecular mechanism underlying sugarcane-S. scitamineum interaction.
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http://dx.doi.org/10.1016/j.gene.2018.08.043DOI Listing
December 2018

Identification and evaluation of PCR reference genes for host and pathogen in sugarcane-Sporisorium scitamineum interaction system.

BMC Genomics 2018 Jun 19;19(1):479. Epub 2018 Jun 19.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Sugarcane (Saccharum L. plant) is an important crop for sugar and bio-energy production around the world. Among sugarcane diseases, smut caused by Sporisorium scitamineum is one of the major fungal diseases causing severe losses to the sugarcane industry. The use of PCR reference genes is essential to the normalization of data on gene expression involving the sugarcane-S. scitamineum interaction system; however, no report that addresses criteria in selecting these reference genes has been published to date.

Results: In this study, 10 sugarcane genes and eight S. scitamineum genes were selected as candidate PCR reference genes in the sugarcane-S. scitamineum interaction system. The stability and reliability of these 18 candidate genes were analyzed in smut-resistant (NCo376) and -susceptible (YC71-374) genotypes using the statistical algorithms geNorm, NormFinder, BestKeeper, and deltaCt method. Subsequently, the relative expression levels of the sugarcane chitinase I-3 gene and S. scitamineum chorismate mutase gene were determined to validate the applicability of these sugarcane and S. scitamineum PCR reference genes, respectively. We finally found that the acyl-CoA dehydrogenase gene (ACAD), serine/arginine repetitive matrix protein 1 gene (SARMp1), or their combination (ACAD + SARMp1) could be utilized as the most suitable reference genes for normalization of sugarcane gene expression in sugarcane bud tissues after S. scitamineum infection. Similarly, the inosine 5'-monophosphate dehydrogenase gene (S10), the SEC65-signal recognition particle subunit gene (S11), or their combination (S10 + S11) were suitable for normalization of S. scitamineum gene expression in sugarcane bud tissues.

Conclusions: The PCR reference genes ACAD, SARMp1, S10, and S11 may be employed in gene transcriptional studies involving the sugarcane-S. scitamineum interaction system.
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http://dx.doi.org/10.1186/s12864-018-4854-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6006842PMC
June 2018

LPV Modeling of a Flexible Wing Aircraft Using Modal Alignment and Adaptive Gridding Methods.

Aerosp Sci Technol 2017 Jul 10;66:92-102. Epub 2017 Mar 10.

Intelligent Systems Division, NASA Ames Research Center.

One of the earliest approaches in gain-scheduling control is the based approach, in which a set of local linear time-invariant models are obtained at various gridded points corresponding to the varying parameters within the flight envelop. In order to ensure smooth and effective Linear Parameter-Varying control, aligning all the flexible modes within each local model and maintaining small number of representative local models over the gridded parameter space are crucial. In addition, since the flexible structural models tend to have large dimensions, a tractable model reduction process is necessary. In this paper, the notion of -shifted [Formula: see text]- and [Formula: see text]-norm are introduced and used as a metric to measure the model mismatch. A new modal alignment algorithm is developed which utilizes the defined metric for aligning all the local models over the entire gridded parameter space. Furthermore, an Adaptive Grid Step Size Determination algorithm is developed to minimize the number of local models required to represent the gridded parameter space. For model reduction, we propose to utilize the concept of Composite Modal Cost Analysis, through which the collective contribution of each flexible mode is computed and ranked. Therefore, a reduced-order model is constructed by retaining only those modes with significant contribution. The NASA Generic Transport Model operating at various flight speeds is studied for verification purpose, and the analysis and simulation results demonstrate the effectiveness of the proposed modeling approach.
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http://dx.doi.org/10.1016/j.ast.2017.03.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5713486PMC
July 2017

Using Next-Generation Sequencing to Detect Differential Expression Genes in Bradysia odoriphaga after Exposure to Insecticides.

Int J Mol Sci 2017 Nov 17;18(11). Epub 2017 Nov 17.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, China.

(Diptera: Sciaridae) is the most important pest of Chinese chive. Insecticides are used widely and frequently to control . in China. However, the performance of the insecticides chlorpyrifos and clothianidin in controlling the Chinese chive maggot is quite different. Using next generation sequencing technology, different expression unigenes (DEUs) in were detected after treatment with chlorpyrifos and clothianidin for 6 and 48 h in comparison with control. The number of DEUs ranged between 703 and 1161 after insecticide treatment. In these DEUs, 370-863 unigenes can be classified into 41-46 categories of gene ontology (GO), and 354-658 DEUs can be mapped into 987-1623 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. The expressions of DEUs related to insecticide-metabolism-related genes were analyzed. The cytochrome P450-like unigene group was the largest group in DEUs. Most glutathione S-transferase-like unigenes were down-regulated and most sodium channel-like unigenes were up-regulated after insecticide treatment. Finally, 14 insecticide-metabolism-related unigenes were chosen to confirm the relative expression in each treatment by quantitative Real Time Polymerase Chain Reaction (qRT-PCR). The results of qRT-PCR and RNA Sequencing (RNA-Seq) are fairly well-established. Our results demonstrate that a next-generation sequencing tool facilitates the identification of insecticide-metabolism-related genes and the illustration of the insecticide mechanisms of chlorpyrifos and clothianidin.
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http://dx.doi.org/10.3390/ijms18112445DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5713412PMC
November 2017

Plant jasmonate ZIM domain genes: shedding light on structure and expression patterns of JAZ gene family in sugarcane.

BMC Genomics 2017 Oct 11;18(1):771. Epub 2017 Oct 11.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Sugarcane smut caused by Sporisorium scitamineum is one of the most severe fungal diseases in the sugarcane industry. Using a molecular biological technique to mine sugarcane resistance genes can provide gene resources for further genetic engineering of sugarcane disease-resistant breeding. Jasmonate ZIM (zinc-finger inflorescence meristem) domain (JAZ) proteins, which involved in the responses to plant pathogens and abiotic stresses, are important signaling molecules of the jasmonic acid (JA) pathway.

Results: Seven differentially expressed sugarcane JAZ genes, ScJAZ1-ScJAZ7, were mined from the transcriptome of sugarcane after inoculation with S. scitamineum. Bioinformatic analyses revealed that these seven ScJAZ genes encoded basic proteins that contain the TIFY and CCT_2 domains. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis demonstrated that the ScJAZ1-ScJAZ7 genes were tissue specific and differentially expressed under adverse stress. During S. scitamineum infection, the transcripts of ScJAZ4 and ScJAZ5 were both upregulated in the susceptible genotype ROC22 and the resistant genotype Yacheng05-179; ScJAZ1, ScJAZ2, ScJAZ3, and ScJAZ7 were downregulated in Yacheng05-179 and upregulated in ROC22; and the expression of ScJAZ6 did not change in ROC22, but was upregulated in Yacheng05-179. The transcripts of the seven ScJAZ genes were increased by the stimuli of salicylic acid and abscisic acid, particularly methyl jasmonate. The expression of the genes ScJAZ1-ScJAZ7 was immediately upregulated by the stressors hydrogen peroxide, sodium chloride, and copper chloride, whereas slightly induced after treatment with calcium chloride and polyethylene glycol. In addition, the expression of ScJAZ6, as well as seven tobacco immunity-associated marker genes were upregulated, and antimicrobial activity against Pseudomonas solanacearum and Fusarium solani var. coeruleum was observed during the transient overexpression of ScJAZ6 in Nicotiana benthamiana, suggesting that the ScJAZ6 gene is associated with plant immunity.

Conclusions: The different expression profiles of the ScJAZ1-ScJAZ7 genes during S. scitamineum infection, the positive response of ScJAZ1-ScJAZ7 to hormones and abiotic treatments, and the function analysis of the ScJAZ6 gene revealed their involvement in the defense against biotic and abiotic stresses. The findings of the present study facilitate further research on the ScJAZ gene family especially their regulatory mechanism in sugarcane.
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http://dx.doi.org/10.1186/s12864-017-4142-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5637078PMC
October 2017

Visual Analytics for Spatial Clusters of Air-Quality Data.

IEEE Comput Graph Appl 2017 ;37(5):98-105

With the rapid development of industrial society, air pollution has become a major issue in the modern world. The development and widespread deployment of sensors has enabled the collection of air-quality datasets with detailed spatial and temporal scales. Analyses of these spatiotemporal air-quality datasets can help decision makers explore the major causes of air pollution and find efficient solutions. The authors designed a visual analytics system that uses multidimensional scaling (MDS) to transform the air-quality data from monitor stations into 2D plots and uses hierarchical clustering, Voronoi diagrams, and storyline visualizations to help experts explore various attributes and time scales in the data.
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http://dx.doi.org/10.1109/MCG.2017.3621228DOI Listing
October 2018

Small RNA sequencing reveals a role for sugarcane miRNAs and their targets in response to Sporisorium scitamineum infection.

BMC Genomics 2017 04 24;18(1):325. Epub 2017 Apr 24.

Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Sugarcane smut caused by Sporisorium scitamineum leads to a significant reduction in cane yield and sucrose content. MicroRNAs (miRNAs) play an important role in regulating plant responses to biotic stress. The present study was the first to use two sugarcane genotypes, YA05-179 (smut-resistant) and ROC22 (smut-susceptible), to identify differentially expressed miRNAs in sugarcane challenged with S. scitamineum by using high-throughput sequencing.

Results: The predicted target gene number corresponding to known differentially expressed miRNAs in YA05-179 was less than that in ROC22, however most of them were in common. Expression of differential miRNAs under S. scitamineum challenge was mostly downregulated, with similar trends in the two varieties. Gene ontology (GO) analysis showed that the target gene classification of known miRNAs was similar to that of the newly identified miRNAs. These were mainly associated with cellular processes and metabolic processes in the biological process category, as well as combination and catalytic activity in the molecular function category. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis revealed that these predicted target genes involved in a series of physiological and biochemical pathways or disease resistance-related physiological metabolism and signal transduction pathways, suggesting that the molecular interaction mechanism between sugarcane and S. scitamineum was a complex network system. These findings also showed certain predicted target genes of miR5671, miR5054, miR5783, miR5221, and miR6478 play roles in the mitogen-activated protein kinase (MAPK) signaling pathway, plant hormone signal transduction, and plant-pathogen interaction. Quantitative real-time PCR (qRT-PCR) analysis showed that majority of the known miRNAs and its predicted target genes followed a negatively regulated mode. Seven out of eight predicted target genes showed identical expression after 12 h treatment and reached the highest degree of matching at 48 h, indicating that the regulatory role of miRNAs on the target genes in sugarcane was maximized at 48 h after S. scitamineum challenge.

Conclusions: Taken together, our findings serve as evidence for the association of miRNA expression with the molecular mechanism underlying the pathogenesis of sugarcane smut, particularly on the significance of miRNA levels in relation to the cultivation of smut-resistant sugarcane varieties.
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http://dx.doi.org/10.1186/s12864-017-3716-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5404671PMC
April 2017

Degradation behavior and compatibility of micro, nanoHA/chitosan scaffolds with interconnected spherical macropores.

Int J Biol Macromol 2017 Oct 31;103:385-394. Epub 2017 Mar 31.

Tianjin Medical University General Hospital, Tianjin 300052, China. Electronic address:

Hydroxyapatite/Chitosan (HA/CS) composite have significant application in biomedical especially for bone replacement. Inorganic particle shape and size of composite affect the scaffold mechanical property, biological property, and degradation. The aim of this study was to fabricate HA/CS scaffold with good pore connectivity and analyze their biological, degradation properties. Microhydroxyapatite/chitosan (mHA/CS) and nanohydroxyapatite/chitosan (nHA/CS) composite scaffolds with interconnected spherical pore architectures were fabricated. Composite scaffolds structure parameters were analyzed using micro CT. Cell proliferation and morphology were tested and compared between two scaffolds using mouse osteoblastic cell line MC3T3-E1. To research the composite degradation in lysozyme PBS solution, degradation rate and reducing sugar content were tested, and scaffolds morphology were observed by SEM. The results showed that microHA and nanoHA were fabricated by being calcined and synthesis methods, and their infrared spectra are very similar. EDAX composition analysis demonstrated that both of microHA and nanoHA were calcium deficiency HA. Micro-CT results demonstrated the scaffolds had interconnected spherical pores, and the structure parameters were similar. Cell viabilities were significant increased with cultured time, but there were no significant difference between microHA/CS and nanoHA/CS scaffolds. Scaffold structure was gradually destroyed and inorganic composition HA particles are more prominent with degradation time.

Significance: (1) Inorganic particle shape and size of composite affect the scaffold mechanical property, biological property, and degradation. NanoHA/CS and microHA/CS scaffolds with good pore connectivity were fabricated and their biological, degradation properties were studied in this manuscript. (2) The scaffold with interconnected porosity construct provides the necessary support for cells to proliferate and maintain their differentiated function, and its architecture related to the structure and morphology of new bone. Polymer scaffolds were fabricated by the technique of compression molding and particulate leaching method, and paraffin microspheres were used as the porogen. (3) MicroHA/CS and nanoHA/CS composite scaffolds are potential materials for use in bone tissue engineering.
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http://dx.doi.org/10.1016/j.ijbiomac.2017.03.175DOI Listing
October 2017

Optimum Wing Shape Determination of Highly Flexible Morphing Aircraft for Improved Flight Performance.

J Aircr 2016 09 10;53(5):1305-1316. Epub 2016 Mar 10.

Michigan State University, East Lansing, MI 48824.

In this paper, optimum wing bending and torsion deformations are explored for a mission adaptive, highly flexible morphing aircraft. The complete highly flexible aircraft is modeled using a strain-based geometrically nonlinear beam formulation, coupled with unsteady aerodynamics and 6-dof rigid-body motions. Since there are no conventional discrete control surfaces for trimming the flexible aircraft, the design space for searching the optimum wing geometries is enlarged. To achieve high performance flight, the wing geometry is best tailored according to the specific flight mission needs. In this study, the steady level flight and the coordinated turn flight are considered, and the optimum wing deformations with the minimum drag at these flight conditions are searched by utilizing a modal-based optimization procedure, subject to the trim and other constraints. The numerical study verifies the feasibility of the modal-based optimization approach, and shows the resulting optimum wing configuration and its sensitivity under different flight profiles.
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http://dx.doi.org/10.2514/1.C033490DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5770154PMC
September 2016

A mechanical evaluation of micro-HA/CS composite scaffolds with interconnected spherical macropores.

Biomed Eng Online 2016 Feb 2;15:12. Epub 2016 Feb 2.

Institute of Medical Equipment, The Academy of Military Medical Sciences, Tianjin, 300161, China.

Background: In the process of bone defective reparation and engineered bone tissue construction, osteoblasts are adhered to the surface of the scaffold materials and impart the external mechanical load to the osteoblasts. So, the dynamic mechanical property of the scaffolds play an important role in the bone tissue repair and it is valuable to research. Material type and the architectural design of scaffolds are also important to facilitate cell and tissue growth. The aim of this study was to prepare a kind of material with good pore connectivity and analyze its dynamic mechanical property.

Methods: Fabrication and characterization of micro-hydroxyapatite(m-HA)/chitosan(CS) polymer composite scaffolds with well interconnected spherical pore architectures were reports. Micro-HA was prepared by being calcined and ball milled. Paraffin spheres in the range of 160-330 µm were fabricated with a dispersion method and used as the porogen in the fabrication of the scaffolds. Polymer scaffolds were fabricated by the technique of compression molding and particulate leaching method. The effects of the porogen content on the properties of the scaffolds were studied.

Results: With the increase of porogen, the pore of the scaffolds increased and became interconnected. Cyclic loading of three scaffolds were tested with 10 % strain under four levels of loading frequency, 0.1, 0.5, 1 and 1.5 Hz. The porous composite scaffolds exhibited a viscosity-elastic behaviour with a maximum stress of 3-4 kPa. At each frequency, modulus value is decreased with the paraffin microspheres content, but there was no significance difference in the peak stress of the three samples. All the samples tested displayed clear hysteresis loops. There was no significance difference in the peak hysteresis of the three samples, and the hysteresis difference values between the sixth compression cycle and the initial cycle for three samples was similar, with no statistically significant differences.

Conclusions: Micro-HA/CS composite scaffolds with interconnected spherical macropores were fabricated using pherical paraffin as porogen. The porous composite scaffolds exhibited a viscosity-elastic behaviour with good repeatability. It is benefit to study the influence of the mechanical load on the cell of the scaffold.
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http://dx.doi.org/10.1186/s12938-015-0114-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735958PMC
February 2016

De novo sequencing and characterization of the Bradysia odoriphaga (Diptera: Sciaridae) larval transcriptome.

Comp Biochem Physiol Part D Genomics Proteomics 2015 Dec 17;16:20-7. Epub 2015 Jul 17.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei 230031, China. Electronic address:

The most serious pestilent threat to the Chinese chive, Allium tuberosum Rottle ex Spreng (Liliaceae) is the Bradysia odoriphaga Yang and Zhang. There is limited genetic research focused on B. odoriphaga, partially due to the lack of genomic resources. The advent of high-throughput sequencing technologies has enabled generation of genomic resources in a short time frame and at minimal costs. In this study, we performed, for the first time, de novo transcriptome sequencing of the B. odoriphaga. Here, 16,829 unigenes were assembled from the total reads, 12,024 of these unigenes were annotated in the NCBI NR protein database, and 9784 were annotated in the Swiss-Prot database. Of these annotated unigenes, 7903 and 5060 unigenes have been assigned to gene ontology categories and clusters of orthologous groups, respectively. Furthermore, 8647 unigenes were mapped to 257 pathways using the Kyoto Encyclopedia of Genes and Genomes Pathway database. We found that 408 unigenes were related to insecticide resistance and metabolism. In addition, 23,122 simple sequence repeats (SSRs) were identified in 11,009 unigenes, and 100 PCR primers of SSR loci were used to validate the assembly quality and polymorphisms. These results provide a good platform for further investigations into the insecticide resistance of B. odoriphaga. Finally, the SSRs identified in B. odoriphaga may be a useful genomic resource.
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http://dx.doi.org/10.1016/j.cbd.2015.07.001DOI Listing
December 2015

Influence of Constant Temperature on Reproductive Parameters of Holotrichia oblita (Coleoptera: Scarabaeidae).

J Insect Sci 2015 8;15. Epub 2015 Jul 8.

Institute of Plant Protection and Agro-products Safety, Anhui Academy of Agricultural Sciences, Hefei, Anhui 230031, People's Republic of China

Holotrichia oblita Faldermann (Coleoptera: Scarabaeidae) is a major pest both in field crops and forests because the larvae could eat the roots of most crops in the field, and the adults damage the leaves of trees and field crops. In this study, we focused on the effects of temperature on H. oblita reproductive parameters. The results indicated H. oblita female adults at 25 °C could lay more eggs (84.0 eggs per female) and have the shortest preoviposition period (19.1 d), the greatest oviposition rate (2.8 eggs per female per 3 d), and largest percentage of life span spent in oviposition (59.5%). The longevity and the time to 50% egg laying decreased with increasing temperature, and female longevity was always longer than male longevity. The preoviposition and postoviposition period decreased with increasing temperature from 15 to 25 °C and then increased when the temperature increased from 25 to 30 °C. These results show that 25 °C is the optimal temperature for reproduction of H. oblita.
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http://dx.doi.org/10.1093/jisesa/iev070DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4535589PMC
April 2016

De novo sequencing, assembly and characterization of antennal transcriptome of Anomala corpulenta Motschulsky (Coleoptera: Rutelidae).

PLoS One 2014 2;9(12):e114238. Epub 2014 Dec 2.

Institute of Plant Protection and Agro-Products Safety, Anhui Academy of Agricultural Sciences, Hefei, China.

Background: Anomala corpulenta is an important insect pest and can cause enormous economic losses in agriculture, horticulture and forestry. It is widely distributed in China, and both larvae and adults can cause serious damage. It is difficult to control this pest because the larvae live underground. Any new control strategy should exploit alternatives to heavily and frequently used chemical insecticides. However, little genetic research has been carried out on A. corpulenta due to the lack of genomic resources. Genomic resources could be produced by next generation sequencing technologies with low cost and in a short time. In this study, we performed de novo sequencing, assembly and characterization of the antennal transcriptome of A. corpulenta.

Results: Illumina sequencing technology was used to sequence the antennal transcriptome of A. corpulenta. Approximately 76.7 million total raw reads and about 68.9 million total clean reads were obtained, and then 35,656 unigenes were assembled. Of these unigenes, 21,463 of them could be annotated in the NCBI nr database, and, among the annotated unigenes, 11,154 and 6,625 unigenes could be assigned to GO and COG, respectively. Additionally, 16,350 unigenes could be annotated in the Swiss-Prot database, and 14,499 unigenes could map onto 258 pathways in the KEGG Pathway database. We also found 24 unigenes related to OBPs, 6 to CSPs, and in total 167 unigenes related to chemodetection. We analyzed 4 OBPs and 3CSPs sequences and their RT-qPCR results agreed well with their FPKM values.

Conclusion: We produced the first large-scale antennal transcriptome of A. corpulenta, which is a species that has little genomic information in public databases. The identified chemodetection unigenes can promote the molecular mechanistic study of behavior in A. corpulenta. These findings provide a general sequence resource for molecular genetics research on A. corpulenta.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0114238PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4252136PMC
January 2016

Qingkailing injection alleviates experimental autoimmune uveitis in rats via inhibiting Th1 and Th17 effector cells.

Biol Pharm Bull 2012 ;35(11):1991-6

Eye Hospital, Shandong University of Traditional Chinese Medicine, Shandong 250002, China.

Qingkailing injection is a well-known composite formula of traditional Chinese medicine and is commonly used in clinical practice, which could offer immunomodulatory effect from our clinical experience on uveitis treatment by Qingkailing. We did the experiment in order to investigate the curative effect and mechanism of Qingkailing injection to rat experimental autoimmune uveitis (EAU). EAU was induced in Lewis rats by immunization IRBP1177-1191 in complete Freund's adjuvant in multi-point. We found that Qingkailing injection can alleviate autoimmune uveitis in rats, inhibit the differentiation toward Th1 and Th17 effector cells and the relevant cytokines secretion. The therapeutic effect may also be regulated through increased secretion of interleukin (IL)-10.
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http://dx.doi.org/10.1248/bpb.b12-00449DOI Listing
April 2013
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