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    Correction to: Jasmonate-mediated defence responses, unlike salicylate-mediated responses, are involved in the recovery of grapevine from bois noir disease.
    BMC Plant Biol 2018 Feb 21;18(1):39. Epub 2018 Feb 21.
    Dipartimento per la Innovazione nei Sistemi Biologici, Agroalimentari e Forestali, Università della Tuscia, Via S. Camillo De Lellis, s.n.c, I-01100, Viterbo, Italy.
    Correction: Following publication of the original article [1], it came to the attention of the authors that they had omitted to acknowledge the University of Parma. The Acknowledgement section should read as follows: "The authors kindly acknowledge the University of Parma (Department of Chemistry, Life Sciences and Environmental Sustainability; formerly Department of Life Sciences/Evolutionary and Functional Biology) for the transfer of funds obtained from the Ager project: GIALLUMI DELLA VITE: TECNOLOGIE INNOVATIVE PER LA DIAGNOSI E LO STUDIO DELLE INTERAZIONI PIANTA/PATOGENO, BANDO AGER VITICOLTURA DA VINO". Read More

    Association of yield-related traits in founder genotypes and derivatives of common wheat (Triticum aestivum L.).
    BMC Plant Biol 2018 Feb 20;18(1):38. Epub 2018 Feb 20.
    Key Laboratory of Crop Gene Resources and Germplasm Enhancment, Ministry of Agriculture/The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
    Background: Yield improvement is an ever-important objective of wheat breeding. Studying and understanding the phenotypes and genotypes of yield-related traits has potential for genetic improvement of crops.

    Results: The genotypes of 215 wheat cultivars including 11 founder parents and 106 derivatives were analyzed by the 9 K wheat SNP iSelect assay. Read More

    Correction to: Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis.
    BMC Plant Biol 2018 Feb 19;18(1):37. Epub 2018 Feb 19.
    Biomass and Bioenergy Research Centre, Huazhong Agricultural University, Wuhan, 430070, China.
    Correction: Following publication of the original article [1], the authors reported that there was a mistake in the presentation of their funding information. The sentence "This study was supported by the National Natural Science Foundation of China (31,100,268 to Peng Chen, 31,270,658 to Bo Zheng);" should instead read "This study was supported by the National Natural Science Foundation of China (31100268 to Peng Chen, 31370604 to Bo Zheng);". Read More

    The unique evolutionary pattern of the Hydroxyproline-rich glycoproteins superfamily in Chinese white pear (Pyrus bretschneideri).
    BMC Plant Biol 2018 Feb 17;18(1):36. Epub 2018 Feb 17.
    Centre of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China.
    Background: The hydroxyproline-rich glycoprotein (HRGP) superfamily, comprising three families (arabinogalactan-proteins, AGPs; extensins, EXTs; proline-rich proteins, PRPs), is a class of proline-rich proteins that exhibit high diversity and are involved in many aspects of plant biology.

    Results: In this study, 838 HRGPs were identified from Chinese white pear (Pyrus bretschneideri) by searching for biased amino acid composition and conserved motifs. 405 HRGPs were derived from whole genome duplication (WGD) events which is suggested to be the major force of driving HRGPs expansion and the recent WGD event shared by apple and pear generated most duplicated HRGPs in pear. Read More

    Comparative analysis of alfalfa (Medicago sativa L.) leaf transcriptomes reveals genotype-specific salt tolerance mechanisms.
    BMC Plant Biol 2018 Feb 15;18(1):35. Epub 2018 Feb 15.
    Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
    Background: Soil salinity is an important factor affecting growth, development, and productivity of almost all land plants, including the forage crop alfalfa (Medicago sativa). However, little is known about how alfalfa responds and adapts to salt stress, particularly among different salt-tolerant cultivars.

    Results: Among seven alfalfa cultivars, we found that Zhongmu-1 (ZM) is relatively salt-tolerant and Xingjiang Daye (XJ) is salt-sensitive. Read More

    HOmediates ALA-induced glutathione and ascorbate accumulation in the perception and resistance to oxidative stress in Solanum lycopersicum at low temperatures.
    BMC Plant Biol 2018 Feb 15;18(1):34. Epub 2018 Feb 15.
    College of Horticulture, Northwest Agriculture & Forestry University, Yangling, Shaanxi, 712100, China.
    Background: Low temperature is a crucial factor influencing plant growth and development. The chlorophyll precursor, 5-aminolevulinic acid (ALA) is widely used to improve plant cold tolerance. However, the interaction between HOand cellular redox signaling involved in ALA-induced resistance to low temperature stress in plants remains largely unknown. Read More

    Diel pattern of circadian clock and storage protein gene expression in leaves and during seed filling in cowpea (Vigna unguiculata).
    BMC Plant Biol 2018 Feb 14;18(1):33. Epub 2018 Feb 14.
    Genetics, ETSIA, Instituto de Biotecnología Vegetal, Universidad Politécnica de Cartagena, 30202, Cartagena, Spain.
    Background: Cowpea (Vigna unguiculata) is an important source of protein supply for animal and human nutrition. The major storage globulins VICILIN and LEGUMIN (LEG) are synthesized from several genes including LEGA, LEGB, LEGJ and CVC (CONVICILIN). The current hypothesis is that the plant circadian core clock genes are conserved in a wide array of species and that primary metabolism is to a large extent controlled by the plant circadian clock. Read More

    Sequence variation and functional analysis of a FRIGIDA orthologue (BnaA3.FRI) in Brassica napus.
    BMC Plant Biol 2018 02 13;18(1):32. Epub 2018 Feb 13.
    National Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, Hubei, 430070, China.
    Background: Allelic variation at the FRIGIDA (FRI) locus is a major contributor to natural variation of flowering time and vernalization requirement in Arabidopsis thaliana. Dominant FRI inhibits flowering by activating the expression of the MADS box transcriptional repressor FLOWERING LOCUS C (FLC), which represses flowering prior to vernalization. Four FRI orthologues had been identified in the domesticated amphidiploid Brassica napus. Read More

    Identification of the WRKY gene family and functional analysis of two genes in Caragana intermedia.
    BMC Plant Biol 2018 02 9;18(1):31. Epub 2018 Feb 9.
    College of Life Sciences, Inner Mongolia Key Laboratory of Plant Stress Physiology and Molecular Biology, Inner Mongolia Agricultural University, Hohhot, China.
    Background: WRKY transcription factors, one of the largest families of transcriptional regulators in plants, play important roles in plant development and various stress responses. The WRKYs of Caragana intermedia are still not well characterized, although many WRKYs have been identified in various plant species.

    Results: We identified 53 CiWRKY genes from C. Read More

    Gene loss and genome rearrangement in the plastids of five Hemiparasites in the family Orobanchaceae.
    BMC Plant Biol 2018 02 6;18(1):30. Epub 2018 Feb 6.
    Department of Genetics, University of Georgia, Athens, GA, 30677, USA.
    Background: The chloroplast genomes (plastome) of most plants are highly conserved in structure, gene content, and gene order. Parasitic plants, including those that are fully photosynthetic, often contain plastome rearrangements. These most notably include gene deletions that result in a smaller plastome size. Read More

    Plant vigour QTLs co-map with an earlier reported QTL hotspot for drought tolerance while water saving QTLs map in other regions of the chickpea genome.
    BMC Plant Biol 2018 02 6;18(1):29. Epub 2018 Feb 6.
    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Greater Hyderabad, Telangana, India.
    Background: Terminal drought stress leads to substantial annual yield losses in chickpea (Cicer arietinum L.). Adaptation to water limitation is a matter of matching water supply to water demand by the crop. Read More

    The optimal COconcentrations for the growth of three perennial grass species.
    BMC Plant Biol 2018 02 5;18(1):27. Epub 2018 Feb 5.
    Center for Remote Sensing and Spatial Analysis, Department of Ecology, Evolution and Natural Resources, Rutgers University, 14 College Farm Road, New Brunswick, NJ, 08901, USA.
    Background: Grasslands are one of the most representative vegetation types accounting for about 20% of the global land area and thus the response of grasslands to climate change plays a pivotal role in terrestrial carbon balance. However, many current climate change models, based on earlier results of the doubling-COexperiments, may overestimate the COfertilization effect, and as a result underestimate the potentially effects of future climate change on global grasslands when the atmospheric COconcentration goes beyond the optimal level. Here, we examined the optimal atmospheric COconcentration effect on COfertilization and further on the growth of three perennial grasses in growth chambers with the COconcentration at 400, 600, 800, 1000, and 1200 ppm, respectively. Read More

    Transcriptome analysis reveals potential mechanisms for different grain size between natural and resynthesized allohexaploid wheats with near-identical AABB genomes.
    BMC Plant Biol 2018 02 5;18(1):28. Epub 2018 Feb 5.
    State Key Laboratory for Agrobiotechnology, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, 100193, China.
    Background: Common wheat is a typical allohexaploid species (AABBDD) derived from the interspecific crossing between allotetraploid wheat (AABB) and Aegilops tauschii (DD). Wide variation in grain size and shape observed among Aegilops tauschii can be retained in synthetic allohexaploid wheats, but the underlying mechanism remains enigmatic. Here, the natural and resynthesized allohexaploid wheats with near-identical AB genomes and different D genomes (TAA10 and XX329) were employed for analysis. Read More

    Integrated omics data of two annual ryegrass (Lolium multiflorum L.) genotypes reveals core metabolic processes under drought stress.
    BMC Plant Biol 2018 01 30;18(1):26. Epub 2018 Jan 30.
    Department of Grassland Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu, China.
    Background: Annual ryegrass (Lolium multiflorum L.) is a commercially important, widely distributed forage crop that is used in the production of hay and silage worldwide. Drought has been a severe environmental constraint in its production. Read More

    Resistance to Plum Pox Virus (PPV) in apricot (Prunus armeniaca L.) is associated with down-regulation of two MATHd genes.
    BMC Plant Biol 2018 01 27;18(1):25. Epub 2018 Jan 27.
    Citriculture and Plant Production Center, Instituto Valenciano de Investigaciones Agrarias (IVIA), CV-315, Km. 10.7, Moncada, 46113, Valencia, Spain.
    Background: Plum pox virus (PPV), causing Sharka disease, is one of the main limiting factors for Prunus production worldwide. In apricot (Prunus armeniaca L.) the major PPV resistance locus (PPVres), comprising ~ 196 kb, has been mapped to the upper part of linkage group 1. Read More

    Ubiquitin-related genes are differentially expressed in isogenic lines contrasting for pericarp cell size and grain weight in hexaploid wheat.
    BMC Plant Biol 2018 01 25;18(1):22. Epub 2018 Jan 25.
    John Innes Centre, Norwich, UK.
    Background: There is an urgent need to increase global crop production. Identifying and combining specific genes controlling distinct biological processes holds the potential to enhance crop yields. Transcriptomics is a powerful tool to gain insights into the complex gene regulatory networks that underlie such traits, but relies on the availability of a high-quality reference sequence and accurate gene models. Read More

    Identification of Gossypium hirsutum long non-coding RNAs (lncRNAs) under salt stress.
    BMC Plant Biol 2018 01 25;18(1):23. Epub 2018 Jan 25.
    State Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Tai'an, 271018, Shandong, People's Republic of China.
    Background: Long non-coding RNAs (lncRNAs) represent a class of riboregulators that either directly act in long form or are processed into shorter microRNAs (miRNAs) and small interfering RNAs. Long noncoding RNAs (lncRNAs) are arbitrarily defined as RNA genes larger than 200 nt in length that have no apparent coding potential. lncRNAs have emerged as playing important roles in various biological regulatory processes and are expressed in a more tissue-specific manner than mRNA. Read More

    Expression of two barley proteinase inhibitors in tomato promotes endogenous defensive response and enhances resistance to Tuta absoluta.
    BMC Plant Biol 2018 01 25;18(1):24. Epub 2018 Jan 25.
    Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV). Ciudad Politécnica de la Innovación Edf, 8E. Av. Ingeniero Fausto Elio sn, 46022, Valencia, Spain.
    Background: Plants and insects have coexisted for million years and evolved a set of interactions which affect both organisms at different levels. Plants have developed various morphological and biochemical adaptations to cope with herbivores attacks. However, Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae) has become the major pest threatening tomato crops worldwide and without the appropriated management it can cause production losses between 80 to 100%. Read More

    Identification of AUXIN RESPONSE FACTOR gene family from Prunus sibirica and its expression analysis during mesocarp and kernel development.
    BMC Plant Biol 2018 01 24;18(1):21. Epub 2018 Jan 24.
    Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, 10083, China.
    Background: Auxin response factors (ARFs) in auxin signaling pathway are an important component that can regulate the transcription of auxin-responsive genes involved in almost all aspects of plant growth and development. To our knowledge, the comprehensive and systematic characterization of ARF genes has never been reported in Prunus sibirica, a novel woody biodiesel feedstock in China.

    Results: In this study, we identified 14 PsARF genes with a perfect open reading frame (ORF) in P. Read More

    Genetical genomics of quality related traits in potato tubers using proteomics.
    BMC Plant Biol 2018 01 23;18(1):20. Epub 2018 Jan 23.
    Plant Breeding, Wageningen University and Research, PO Box 386, 6700 AJ, Wageningen, The Netherlands.
    Background: Recent advances in ~omics technologies such as transcriptomics, metabolomics and proteomics along with genotypic profiling have permitted the genetic dissection of complex traits such as quality traits in non-model species. To get more insight into the genetic factors underlying variation in quality traits related to carbohydrate and starch metabolism and cold sweetening, we determined the protein content and composition in potato tubers using 2D-gel electrophoresis in a diploid potato mapping population. Upon analyzing we made sure that the proteins from the patatin family were excluded to ensure a better representation of the other proteins. Read More

    The walnut JrVHAG1 gene is involved in cadmium stress response through ABA-signal pathway and MYB transcription regulation.
    BMC Plant Biol 2018 01 22;18(1):19. Epub 2018 Jan 22.
    Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, Shaanxi, 712100, China.
    Background: Vacuolar H-ATPase (V-ATPase) is a vital protein complex involved in abiotic stress response in plants. The G subunit of Juglans regia (JrVHAG1) was previously identified as a drought tolerance-related gene involved in the ABA (abscisic acid)-signal pathway. Heavy metal stress is becoming a major detriment for plant growth, development, and production. Read More

    Ectopic expression of the apple nucleus-encoded thylakoid protein MdY3IP1 triggers early-flowering and enhanced salt-tolerance in Arabidopsis thaliana.
    BMC Plant Biol 2018 01 20;18(1):18. Epub 2018 Jan 20.
    National Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, 271018, China.
    Background: The roles in photosystem I (PSI) assembly of the nucleus-encoded thylakoid protein Y3IP1 who interacts with the plastid-encoded Ycf3 protein that has been well-characterized in plants. However, its function and potential mechanisms in other aspects remain poorly understood.

    Results: We identified the apple MdY3IP1 gene, which encodes a protein highly homologous to the Arabidopsis Y3IP1 (AtY3IP1). Read More

    Identification of minor effect QTLs for plant architecture related traits using super high density genotyping and large recombinant inbred population in maize (Zea mays).
    BMC Plant Biol 2018 01 18;18(1):17. Epub 2018 Jan 18.
    State Key Laboratory of Agrobiotechnology and National Maize Improvement Center, Department of Plant Genetics and Breeding, China Agricultural University, Beijing, China.
    Background: Plant Architecture Related Traits (PATs) are of great importance for maize breeding, and mainly controlled by minor effect quantitative trait loci (QTLs). However, cloning or even fine-mapping of minor effect QTLs is very difficult in maize. Theoretically, large population and high density genetic map can be helpful for increasing QTL mapping resolution and accuracy, but such a possibility have not been actually tested. Read More

    Expression and functional analysis of the Propamocarb-related gene CsDIR16 in cucumbers.
    BMC Plant Biol 2018 01 18;18(1):16. Epub 2018 Jan 18.
    College of Horticulture and Landscape Architecture, Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Northeast Agricultural University, Harbin, 150030, China.
    Background: Cucumber downy mildew is among the most important diseases that can disrupt cucumber production. Propamocarb, also known as propyl-[3-(dimethylamino)propyl]carbamate (PM), is a systemic carbamate fungicide pesticide that is widely applied in agricultural production because of its high efficiency of pathogens control, especially cucumber downy mildew. However, residual PM can remain in cucumbers after the disease has been controlled. Read More

    Calcium-dependent protein kinases in cotton: insights into early plant responses to salt stress.
    BMC Plant Biol 2018 01 17;18(1):15. Epub 2018 Jan 17.
    State Key Laboratory of Cotton Biology; Henan Key Laboratory of Plant Stress Biology; School of Life Science, Henan University, Kaifeng, Henan, 475004, People's Republic of China.
    Background: Soil salinization is one of the major environmental constraints to plant growth and agricultural production worldwide. Signaling components involving calcium (Ca) and the downstream calcium-dependent protein kinases (CPKs) play key roles in the perception and transduction of stress signals. However, the study of CPKs in cotton and their functions in response to salt stress remain unexplored. Read More

    Correction to: The transcriptome landscape of early maize meiosis.
    BMC Plant Biol 2018 01 15;18(1):12. Epub 2018 Jan 15.
    Department of Horticultural Science, University of Minnesota, St. Paul, MN, 55108, USA.
    Correction: Following publication of the original article [1], the authors reported that the number of genes overlaying the bar graph in Fig. 3A were incorrectly counted and inserted (i.e. Read More

    Influence of drought stress on afalfa yields and nutritional composition.
    BMC Plant Biol 2018 01 15;18(1):13. Epub 2018 Jan 15.
    Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, Erdos Street 29, Saihan District, Hohhot, 010019, China.
    Background: It is predicted that climate change may increase the risk of local droughts, with severe consequences for agricultural practices.

    Methods: Here we report the influence of drought on alfalfa yields and nutritional composition, based on artificially induced drought conditions during two field experiments. Two types of alfalfa cultivars were compared, Gold Queen and Suntory. Read More

    Expression characterization of the herbicide tolerance gene Aryloxyalkanoate Dioxygenase (aad-1) controlled by seven combinations of regulatory elements.
    BMC Plant Biol 2018 01 15;18(1):14. Epub 2018 Jan 15.
    Dow AgroSciences, LLC, 9330 Zionsville Rd, Indianapolis, IN, 46268, USA.
    Background: Availability of well characterized maize regulatory elements for gene expression in a variety of tissues and developmental stages provides effective alternatives for single and multigene transgenic concepts. We studied the expression of the herbicide tolerance gene aryloxyalkanoate dioxygenase (aad-1) driven by seven different regulatory element construct designs including the ubiquitin promoters of maize and rice, the actin promoters of melon and rice, three different versions of the Sugarcane Bacilliform Badnavirus promoters in association with other regulatory elements of gene expression.

    Results: Gene expression of aad-1 was characterized at the transcript and protein levels in a collection of maize tissues and developmental stages. Read More

    Chlorophyll fluorescence analysis revealed essential roles of FtsH11 protease in regulation of the adaptive responses of photosynthetic systems to high temperature.
    BMC Plant Biol 2018 01 10;18(1):11. Epub 2018 Jan 10.
    Plant Stress and Germplasm Development Unit, USDA-ARS, 3810 4th Street, Lubbock, TX, 79415, USA.
    Background: Photosynthetic systems are known to be sensitive to high temperature stress. To maintain a relatively "normal" level of photosynthetic activities, plants employ a variety of adaptive mechanisms in response to environmental temperature fluctuations. Previously, we reported that the chloroplast-targeted AtFtsH11 protease played an essential role for Arabidopsis plants to survive at high temperatures and to maintain normal photosynthetic efficiency at moderately elevated temperature. Read More

    Transcriptomic analyses reveal molecular mechanisms underlying growth heterosis and weakness of rubber tree seedlings.
    BMC Plant Biol 2018 01 9;18(1):10. Epub 2018 Jan 9.
    Key Laboratory of Biology and Genetic Resources of Rubber Tree, Ministry of Agriculture, Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences, Baodao Xincun, Danzhou, Hainan, 571737, China.
    Background: Breeding rubber tree seedling with growth heterosis is vital for natural rubber production. It is the prerequisites for effectively utilizing growth heterosis to elucidate its molecular mechanisms, but the molecular mechanisms remain poorly understood in rubber tree. To elucidate seedling growth heterosis, we conducted comparative transcriptomic analyses between the two hybrids and their parents. Read More

    Long branch-chains of amylopectin with B-type crystallinity in rice seed with inhibition of starch branching enzyme I and IIb resist in situ degradation and inhibit plant growth during seedling development : Degradation of rice starch with inhibition of SBEI/IIb during seedling development.
    BMC Plant Biol 2018 01 8;18(1). Epub 2018 Jan 8.
    Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou, 225009, China.
    Background: Endosperm starch provides prime energy for cereal seedling growth. Cereal endosperm with repression of starch branching enzyme (SBE) has been widely studied for its high resistant starch content and health benefit. However, in barley and maize, the repression of SBE changes starch component and amylopectin structure which affects grain germination and seedling establishment. Read More

    Chemical hybridizing agent SQ-1-induced male sterility in Triticum aestivum L.: a comparative analysis of the anther proteome.
    BMC Plant Biol 2018 01 5;18(1). Epub 2018 Jan 5.
    College of Life Science and Agronomy, Zhoukou Normal University, Zhoukou, Henan, China.
    Background: Heterosis is widely used to increase the yield of many crops. However, as wheat is a self-pollinating crop, hybrid breeding is not so successful in this organism. Even though male sterility induced by chemical hybridizing agents is an important aspect of crossbreeding, the mechanisms by which these agents induce male sterility in wheat is not well understood. Read More

    Genomic abundance and transcriptional activity of diverse gypsy and copia long terminal repeat retrotransposons in three wild sunflower species.
    BMC Plant Biol 2018 01 5;18(1). Epub 2018 Jan 5.
    Division of Biology, Kansas State University, Manhattan, KS, 66506, USA.
    Background: Long terminal repeat (LTR) retrotransposons are highly abundant in plant genomes and require transcriptional activity for their proliferative mode of replication. These sequences exist in plant genomes as diverse sublineages within the main element superfamilies (i.e. Read More

    Transcript profiling of sucrose synthase genes involved in sucrose metabolism among four carrot (Daucus carota L.) cultivars reveals distinct patterns.
    BMC Plant Biol 2018 01 5;18(1). Epub 2018 Jan 5.
    State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing, 210095, China.
    Background: Carrot which contains lots of nutrients has a large demand around the world. The soluble sugar content in fleshy root of carrot directly influences its taste and quality. Sucrose, as an important member of soluble sugar, is the main product of photosynthesis in higher plants and it plays pivotal roles in physiological processes including energy supply, signal transduction, transcriptional regulation, starch and cellulose synthesis, and stress tolerance. Read More

    Exogenous short-term silicon application regulates macro-nutrients, endogenous phytohormones, and protein expression in Oryza sativa L.
    BMC Plant Biol 2018 01 4;18(1). Epub 2018 Jan 4.
    Division of Plant Biosciences, Kyungpook National University, Daegu, 41566, South Korea.
    Background: Silicon (Si) has been known to regulate plant growth; however, the underlying mechanisms of short-term exogenous Si application on the regulation of calcium (Ca) and nitrogen (N), endogenous phytohormones, and expression of essential proteins have been little understood.

    Results: Exogenous Si application significantly increased Si content as compared to the control. Among Si treatments, 1. Read More

    The comparison of alternative splicing among the multiple tissues in cucumber.
    BMC Plant Biol 2018 01 5;18(1). Epub 2018 Jan 5.
    MOE Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, No 19 Xinjiekouwai Street, Beijing, 100875, China.
    Background: Alternative splicing (AS) is an important post-transcriptional process. It has been suggested that most AS events are subject to tissue-specific regulation. However, the global dynamics of AS in different tissues are poorly explored. Read More

    Root lodging is a physical stress that changes gene expression from sucrose accumulation to degradation in sorghum.
    BMC Plant Biol 2018 01 3;18(1). Epub 2018 Jan 3.
    Institute of Crop Science (NICS), National Agriculture and Food Research Organization, 2-1-2, Kannondai, Tsukuba, Ibaraki, 305-8518, Japan.
    Background: Sorghum (Sorghum bicolor L.) is used as a raw material for biofuels because it accumulates sugars at high levels in the stem. Lodging of sorghum occurs when the soil is wet and very high winds blow across the field. Read More

    Functional characterization of chitin-binding lectin from Solanum integrifolium containing anti-fungal and insecticidal activities.
    BMC Plant Biol 2018 01 3;18(1). Epub 2018 Jan 3.
    Department of Laboratory Medicine and Biotechnology, College of Medicine, Tzu Chi University, Hualien, Taiwan, Republic of China.
    Background: Along with the rapid development of glycomic tools, the study of lectin-carbohydrate interactions has expanded, opening the way for applications in the fields of analytic, diagnostic, and drug delivery. Chitin-binding lectins (CBLs) play roles in immune defense against chitin-containing pathogens. CBLs from species of the Solanaceae family, such as tomato, potato and jimsonweed, display different binding specificities to sugar chains containing poly-N-acetyllactosamine. Read More

    Comparative analysis of inverted repeats of polypod fern (Polypodiales) plastomes reveals two hypervariable regions.
    BMC Plant Biol 2017 12 28;17(Suppl 2):255. Epub 2017 Dec 28.
    M.V. Lomonosov Moscow State University, 119991, Moscow, Russia.
    Background: Ferns are large and underexplored group of vascular plants (~ 11 thousands species). The genomic data available by now include low coverage nuclear genomes sequences and partial sequences of mitochondrial genomes for six species and several plastid genomes.

    Results: We characterized plastid genomes of three species of Dryopteris, which is one of the largest fern genera, using sequencing of chloroplast DNA enriched samples and performed comparative analysis with available plastomes of Polypodiales, the most species-rich group of ferns. Read More

    Differential gene expression in response to Fusarium oxysporum infection in resistant and susceptible genotypes of flax (Linum usitatissimum L.).
    BMC Plant Biol 2017 12 28;17(Suppl 2):253. Epub 2017 Dec 28.
    Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia.
    Background: Flax (Linum usitatissimum L.) is a crop plant used for fiber and oil production. Although potentially high-yielding flax varieties have been developed, environmental stresses markedly decrease flax production. Read More

    Taxonomic assessment of Allium species from Kazakhstan based on ITS and matK markers.
    BMC Plant Biol 2017 12 28;17(Suppl 2):258. Epub 2017 Dec 28.
    Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan.
    Background: As part of nation-wide project to infer the genetic variation of the native flora in Kazakhstan, a study was attempted to assess phylogenetic relationships of endemic and rare Allium species. In total, 20 Allium species were collected in field trips in five different regions of Kazakhstan during 2015-2016. Most species (9) were collected in the southern part of the country along of Karatau mountains, followed by Altai mountains (5) in eastern Kazakhstan. Read More

    Potential of selected fungal species to degrade wheat straw, the most abundant plant raw material in Europe.
    BMC Plant Biol 2017 12 28;17(Suppl 2):249. Epub 2017 Dec 28.
    University of Belgrade, Faculty of Biology, Takovska 43, Belgrade, 11000, Serbia.
    Background: Structural component of plant biomass, lignocellulose, is the most abundant renewable resource in nature. Lignin is the most recalcitrant natural aromatic polymer and its degradation presents great challenge. Nowadays, the special attention is given to biological delignification, the process where white-rot fungi take the crucial place owing to strong ligninolytic enzyme system. Read More

    Genes WHEAT FRIZZY PANICLE and SHAM RAMIFICATION 2 independently regulate differentiation of floral meristems in wheat.
    BMC Plant Biol 2017 12 28;17(Suppl 2):252. Epub 2017 Dec 28.
    College of Agriculture, Ibaraki University, Ibaraki, Japan.
    Background: Inflorescences of wheat species, spikes, are characteristically unbranched and bear one sessile spikelet at a spike rachis node. Development of supernumerary spikelets (SSs) at rachis nodes or on the extended rachillas is abnormal. Various wheat morphotypes with altered spike morphology, associated with the development of SSs, present an important genetic resource for studies on genetic regulation of wheat inflorescence development. Read More

    The factors affecting the evolution of the anthocyanin biosynthesis pathway genes in monocot and dicot plant species.
    BMC Plant Biol 2017 12 28;17(Suppl 2):256. Epub 2017 Dec 28.
    Institute of Cytology and Genetics, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia.
    Background: The available data demonstrate that even in universal metabolic pathways, some species-specific regulatory features of structural genes are present. For instance, in the anthocyanin biosynthesis pathway (ABP), genes may be regulated by ABP-specific regulatory factors, and their expression levels may be strongly associated with anthocyanin pigmentation, or they may be expressed independently of pigmentation. A dataset of orthologous ABP genes (Chs, Chi, F3h, F3'h, Dfr, Ans) from monocot and dicot plant species that have distinct gene regulation patterns and different types of pollination was constructed to test whether these factors affect the evolution of the genes. Read More

    Advantages of Amplifluor-like SNP markers over KASP in plant genotyping.
    BMC Plant Biol 2017 12 28;17(Suppl 2):254. Epub 2017 Dec 28.
    School of Biological Sciences, Flinders University, Bedford Park, SA, Australia.
    Background: KASP (KBioscience Competitive Allele Specific PCR) and Amplifluor (Amplification with fluorescence) SNP markers are two prominent technologies based upon a shared identical Allele-specific PCR platform.

    Methods: Amplifluor-like SNP and KASP analysis was carried out using published and own design of Universal probes (UPs) and Gene-specific primers (GSPs).

    Results: Advantages of the Amplifluor-like system over KASP include the significantly lower costs and much greater flexibility in the adjustment and development of 'self-designed' dual fluorescently-labelled UPs and regular GSPs. Read More

    Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis.
    BMC Plant Biol 2017 12 28;17(Suppl 2):251. Epub 2017 Dec 28.
    All Russian Research Institute for Plant Protection, Saint Petersburg, 196608, Russia.
    Background: The characterization of major resistance genes (R genes) in the potato remains an important task for molecular breeding. However, R genes are rapidly evolving and frequently occur in genomes as clusters with complex structures, and their precise mapping and identification are complicated and time consuming.

    Results: Comparative analysis of root transcriptomes of Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis revealed a number of differentially expressed genes. Read More

    Identification of 50 K Illumina-chip SNPs associated with resistance to spot blotch in barley.
    BMC Plant Biol 2017 12 28;17(Suppl 2):250. Epub 2017 Dec 28.
    Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences, Lavrentjeva ave. 10, Novosibirsk, 630090, Russia.
    Background: Spot blotch, caused by Cochliobolus sativus, is one of the most widespread and harmful diseases in barley. Identification of genetic loci associated with resistance to C. sativus is of importance for future marker-assisted selection. Read More

    Insights into the molecular regulation of monolignol-derived product biosynthesis in the growing hemp hypocotyl.
    BMC Plant Biol 2018 01 2;18(1). Epub 2018 Jan 2.
    Environmental Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology (LIST), L-4362, Esch/Alzette, Luxembourg.
    Background: Lignin and lignans are both derived from the monolignol pathway. Despite the similarity of their building blocks, they fulfil different functions in planta. Lignin strengthens the tissues of the plant, while lignans are involved in plant defence and growth regulation. Read More

    Mapping and screening of the tomato Stemphylium lycopersici resistance gene, Sm, based on bulked segregant analysis in combination with genome resequencing.
    BMC Plant Biol 2017 12 29;17(1):266. Epub 2017 Dec 29.
    College of Horticulture, Northeast Agricultural University, Mucai Street 59, Xiangfang District Harbin, 150030, China.
    Background: Tomato gray leaf spot disease caused by Stemphylium lycopersici (S. lycopersici) is considered one of the major diseases of cultivated tomatoes. The only S. Read More

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