Publications by authors named "Dan-Dan Shang"

14 Publications

  • Page 1 of 1

Gelidibacter maritimus sp. nov., isolated from marine sediment.

Arch Microbiol 2021 Jul 26. Epub 2021 Jul 26.

Marine College, Shandong University, Weihai, Shandong, 264209, People's Republic of China.

A Gram-stain-negative, yellow, strictly aerobic, non-flagellated, gliding, rod-shaped bacterial strain, was isolated from costal sediment, designated as F6074. The strain F6074 grows optimally at 30 °C, pH 7.5, and 3.0% (w/v) NaCl. Cells of strain F6074 are 0.2-0.5 µm wide and 1.0-2.0 µm long. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain F6074 belonged to the genus Gelidibacter, with the highest sequence similarity to Gelidibacter japonicus JCM 31967 (98.0%), followed by G. flavus JCM 31135 (97.7%), and similarity between strain F6074 and the type species G. algens DSM 12408 was 96.0%. Genome sequencing results revealed a genome size of 47,07,621 bp. The DNA G + C content was 37.8 mol%. The ANI and dDDH values between strain F6074 and G. japonicus JCM 31967 were 83.9 and 27.8%, the values between strain F6074 and G. algens DSM 12408 were 77.5% and 31.5%, and the values between strain F6074 and G. flavus JCM 31135 were 84.3 and 27.9%, respectively. The predominant quinone was MK-6 and the major fatty acids were iso-C, iso-CG, iso-C 3-OH, anteiso-C and summed feature 3. The polar lipids were consisted of phosphatidylethanolamine (PE), two unidentified aminolipids (AL) and three unidentified lipids (L1, L2, L3). Based on the phenotypic, phylogenetic and chemotaxonomic data, strain F6074 was considered to represent a novel species of the genus Gelidibacter, for which the name Gelidibacter maritimus sp. nov., is proposed. The type strain is F6074 (MCCC 1H00427 = KCTC 72942).
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http://dx.doi.org/10.1007/s00203-021-02478-1DOI Listing
July 2021

Gelidibacter pelagius sp. nov., Isolated from Coastal Sediment.

Curr Microbiol 2021 Aug 1;78(8):3342-3348. Epub 2021 Jul 1.

Marine College, Shandong University, Weihai, 264209, Shandong, People's Republic of China.

A novel Gram-stain-negative, aerobic, rod-shaped, non-flagellated, and gliding bacterial strain, designated DF109, was isolated from the coastal sediment of Jingzi Wharf, Weihai, China. The optimal growth occurs at 28°C, pH 7.0-7.5, and 1.0% (w/v) NaCl environment. The colony was yellow-colored, convex, non-transparent, and circular on 2216E Agar. Phylogenetic analyses of the 16S rRNA gene and genome sequence of this newly isolated strain revealed that it is a member of the genus Gelidibacter within the family Flavobacteriaceae. The phylogenetic analysis based on 16S rRNA gene sequences indicated that strain DF109 has the highest sequence similarity to Gelidibacter japonicus JCM 31967 (98.0%). The average nucleotide identity (ANI) values between genomes of DF109 and G. japonicus JCM 31967 and G. algens DSM 12408 were 86.3% and 78.7% and the digital DNA-DNA hybridization (dDDH) values were 31.4% and 22.4%, respectively. The sole isoprenoid quinone was MK-6 and the major cellular fatty acids were iso-CG, iso-C 3-OH, anteiso-C, and iso-C 3-OH. The major polar lipids of strain DF109 were an aminolipid, a phosphatidylethanolamine, and four unidentified lipids. The genomic DNA G+C content was 37.5 mol%. Strain DF109 is suggested to represent a novel species in the genus Gelidibacter, for which the name Gelidibacter pelagius sp. nov. is proposed. The type strain is DF109 (=MCCC 1H00454=KCTC 82420).
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http://dx.doi.org/10.1007/s00284-021-02591-wDOI Listing
August 2021

gen. nov., sp. nov. and sp. nov., in the family .

Int J Syst Evol Microbiol 2021 Jun;71(6)

Marine College, Shandong University, Weihai, Shandong, 264209, PR China.

Two Gram-stain-negative, moderately halophilic, non-motile, rod-shaped, pale yellow, and aerobic strains, designated WDS1C4 and WDS4C29, were isolated from a marine solar saltern in Weihai, Shandong Province, PR China. Growth of strain WDS1C4 occurred at 10-45 °C (optimum, 37 °C), with 4-16 % (w/v) NaCl (optimum, 8 %) and at pH 6.5-9.0 (optimum, pH 7.5). Growth of strain WDS4C29 occurred at 10-45 °C (optimum, 40 °C), with 2-18 % (w/v) NaCl (optimum, 6 %) and at pH 6.5-9.0 (optimum, pH 7.5). Q-10 was the sole respiratory quinone of the two strains. The major polar lipids of strains WDS1C4 and WDS4C29 were phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine. The major cellular fatty acid in strains WDS1C4 and WDS4C29 was C 7, and the genomic DNA G+C contents of strains WDS1C4 and WDS4C29 were 67.6 and 63.3 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strains WDS1C4 and WDS4C29 were members of the family and showed 94.3 and 95.3 % similarities to their closest relative, , respectively. The similarity between WDS1C4 and WDS4C29 was 97.3 %. Differential phenotypic and genotypic characteristics of the two isolates from recognized genera showed that the two strains should be classified as representing two novel species in a new genus for which the names gen. nov., sp. nov. (type species, type strain WDS1C4=MCCC 1H00179=KCTC 52542) and sp. nov. (WDS4C29=MCCC 1H00175=KCTC 52541) are proposed.
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http://dx.doi.org/10.1099/ijsem.0.004808DOI Listing
June 2021

Integration of transcriptomics and system pharmacology to reveal the therapeutic mechanism underlying Qingfei Xiaoyan Wan to treat allergic asthma.

J Ethnopharmacol 2021 Oct 4;278:114302. Epub 2021 Jun 4.

State Key Laboratory of Component-based Chinese Medicine, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China. Electronic address:

Ethnopharmacological Relevance: Asthma is a chronic inflammatory disease, characterized by airway inflammation, hyperresponsiveness, and bronchial smooth muscle contraction. Qingfei Xiaoyan Wan (QFXYW), a traditional Chinese formula, has been shown to exert anti-asthma effects and immune response in multiple diseases.

Aim Of This Study: In this study, we evaluated the therapeutic mechanism of QFXYW in the suppression of allergic asthma by integrating of transcriptomics and system pharmacology.

Materials And Methods: BALB/c mice were sensitized with ovalbumin (OVA) to establish the allergic asthma model, and its success was confirmed with behavioral observations. Lung histopathological analysis, inflammatory pathology scores, transcription factors were used to evaluate the effects of QFXYW on allergic asthma. The therapeutic mechanism of QFXYW in treating allergic asthma through integrated transcriptomics and system pharmacology was then determined: hub genes were screened out by topological analysis and functional enrichment analysis were performed to identify key signaling pathway. Subsequently, quantitative RP-PCR and protein array were performed to detect the mRNA of hub genes and to predict the key pathway in OVA-induced allergic asthma, respectively.

Results: Our results demonstrated that QFXYW could significantly attenuate inflammatory cell infiltration, mucus secretion, and epithelial damage. The transcriptomics analysis found the six hub genes with the highest values- CXCL10, CXCL2, CXCL1, IL-6, CCL-5, and CCL-4 were screened out. Functional enrichment analysis showed that the differentially expressed genes (DEGs) were mainly enriched in the inflammatory response and cytokine signaling pathway. Moreover, the quantitative RT-PCR verification experiment found the CXCL2 and CXCL1 were significantly suppressed after treatment with QFXYW. The results of protein array showed that QFXYW inhibited the multi-cytokines of OVA-induced allergic asthma via cytokine signaling pathway.

Conclusions: QFXYW may have mediated OVA-induced allergic asthma mainly through the hub genes CXCL2, CXCL1, and the cytokine signaling pathway. This finding will offer a novel strategy to explore effective and safe mechanism of Traditional Chinese Medicine (TCM) formula to treat allergic asthma.
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http://dx.doi.org/10.1016/j.jep.2021.114302DOI Listing
October 2021

Salegentibacter maritimus sp. nov., isolated from marine coastal sediment.

Syst Appl Microbiol 2021 May 5;44(3):126209. Epub 2021 May 5.

Marine College, Shandong University, Weihai, Shandong 264209, PR China; State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong 266237, PR China. Electronic address:

Two bacterial strains were isolated from a marine sediment sample taken from Jingzi Wharf, Weihai, China. These two strains were characterized at the phenotypic, chemotaxonomic, and genomic level. The two strains possessed almost identical 16S rRNA gene sequences (99.9 %). However, RAPD-PCR fingerprint patterns discriminated that they were not from one clonal origin. The average nucleotide identity (ANI) value and the digital DNA-DNA hybridization (dDDH) value between the two strains were 98.3 % and 85.4 %, respectively, suggestingthat they belonged to the same species. On the basis of the result of phylogenetic analysis of the 16S rRNA gene sequences, the two strains belonged to the genus Salegentibacter and were closely related to S. holothuriorum KCTC 12371 (98.6 %) and S. salegens DSM 5424 (98.2-98.3 %). The ANI and dDDH clearly separated strains F63223 and F60176 from the the most related type strains with values below the thresholds for species. The genome sizes of strains F63223 and F60176 were approximate 3.89 and 3.59 Mbp, respectively. The strain F63223 had 3,335 predicted genes with DNA G + C content of 35.6 %. The major respiratory quinone was MK-6 and the major polar lipids were phosphatidylethanolamine and one unidentified lipid. According to the results of the phenotypic, chemotaxonomic characterization, phylogenetic classification and genome analysis, the two isolates could be considered to represent a novel species of the genus Salegentibacter, for which the name Salegentibacter maritimus sp. nov., is proposed, with F63223 (=MCCC 1H00433 = KCTC 82417) as the type strain.
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http://dx.doi.org/10.1016/j.syapm.2021.126209DOI Listing
May 2021

Ruegeria haliotis sp. nov., Isolated from the Gut of the Abalone Haliotis rubra.

Curr Microbiol 2021 May 1;78(5):2151-2159. Epub 2021 Apr 1.

State Key Laboratory of Microbial Technology, Shandong University, Qingdao, 266237, People's Republic of China.

A Gram-stain-negative, aerobic, non-motile, white-pigmented, short rod-shaped, and alginate-degrading bacterium, designated B1Z28, was isolated from the gut of the abalone Haliotis rubra obtained at Weihai, China. Strain B1Z28 was found to grow at 4-35 °C, pH 6.5-9.0, and in the presence of 0.5-8.0% (w/v) NaCl. Cells were positive for oxidase and catalase activity. The 16S rRNA-based phylogenetic analysis revealed that the nearest phylogenetic neighbors of strain B1Z28 were Tritonibacter scottomollicae MCCC 1A06440 (98.1%), Ruegeria faecimaris KCTC 23044 (98.0%), and Ruegeria meonggei KCTC 32450 (97.8%). Based on phylogenomic analysis, the average nucleotide identity (ANI) values between strain B1Z28 and the neighbor strains were 71.6, 77.2, and 78.1%, respectively; the digital DNA-DNA hybridization (dDDH) values based on the draft genomes between strain B1Z28 and its closest neighbors were 20.5, 20.8, and 21.6%, respectively. Ubiquinone-10 (Q-10) was detected as the predominant respiratory quinone. The dominant cellular fatty acids were Summed feature 8 (contained C ω7c and/or C ω6c). The polar lipids included phosphatidylethanolamine (PE), diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phospholipid (PL), aminolipid (AL), and three unidentified lipids. Based on the phylogenetic and phenotypic characteristics, strain B1Z28 is considered to represent a novel species of the genus Ruegeria, for which the name Ruegeria haliotis sp. nov. is proposed. The type strain is B1Z28 (= KCTC 72686 = MCCC 1H00393).
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http://dx.doi.org/10.1007/s00284-021-02450-8DOI Listing
May 2021

Tenacibaculum pelagium sp. nov., isolated from marine sediment.

Arch Microbiol 2021 Jul 25;203(5):2229-2236. Epub 2021 Feb 25.

Marine College, Shandong University, Weihai, 264209, Shandong, People's Republic of China.

A novel bright yellow pigmented, Gram-stain-negative, gliding, aerobic and rod-shaped marine bacterium, designated strain S7007, was isolated from a marine sediment sample taken from Jingzi Wharf, Weihai, China. The bacterium was able to grow at 4-33 °C (optimum 28 °C), at pH 6.5-9.0 (optimum 7.0) and with 2.0-4.0% (w/v) NaCl (optimum 3.0%). According to the phylogenetic analysis based on the 16S rRNA gene sequences, strain S7007 was associated with the genus Tenacibaculum and showed highest similarity to Tenacibaculum adriaticum JCM 14633 (98.0%). The average nucleotide identity (ANI) scores of strain S7007 with T. adriaticum JCM 14633 and T. maritimum NBRC 110778 were 78.3% and 77.1%, respectively and the Genome-to-Genome Distance Calculator (dDDH) scores were 20.5% and 19.9%, respectively. The sole isoprenoid quinone was MK-6 and the major cellular fatty acids (> 10.0%) were iso-C, iso-C 3-OH, iso-C G and summed feature 3 (comprising C ω7c and/or C ω6c). The major polar lipids of strain S7007 were phosphatidylethanolamine, phosphatidyldimethylethanolamine, one unidentified lipid and two unidentified aminolipids. The genomic DNA G + C content was 30.9 mol %. The combined phenotypic data and phylogenetic inference that strain S7007 should be classified as a novel species in the genus Tenacibaculum, for which the name Tenacibaculum pelagium sp. nov. is proposed. The type strain is S7007 (= MCCC 1H00428 = KCTC 72941).
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http://dx.doi.org/10.1007/s00203-021-02208-7DOI Listing
July 2021

Two Novel Mutations and a Mutation in in Early-onset Alzheimer's Disease.

Aging Dis 2019 Aug 1;10(4):908-914. Epub 2019 Aug 1.

1Department of Neurology, The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, Zhengzhou, Henan, China.

Presenilin 1 (), presenilin 2 (), and amyloid precursor protein () mutations are responsible for autosomal dominant early-onset Alzheimer's disease (AD-EOAD). To analyze the phenotypes and genotypes of EOAD patients, we performed comprehensive clinical assessments as well as mutation screening of , , and exons 16 and 17 of by Sanger sequencing in the three Chinese EOAD families. We identified two novel mutations of (Y256N and H214R) in samples from these families, and a mutation of (G206V) in a patient with very early-onset sporadic Alzheimer's disease. A combination of bioinformatics tools based on evolutionary, structural and computational methods predicted that the mutations were all deleterious. These findings suggest that Y256N, H214R, and G206V need to be considered as potential causative mutations in EOAD patients. Further functional studies are needed to evaluate the roles of these mutations in the pathogenesis of AD.
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http://dx.doi.org/10.14336/AD.2018.1109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6675531PMC
August 2019

A novel RAB39B gene mutation in X-linked juvenile parkinsonism with basal ganglia calcification.

Mov Disord 2016 12;31(12):1905-1909

Department of Neurology, The First affiliated Hospital of Zhengzhou University, Zhengzhou University, Zhengzhou, Henan, China.

Objectives: Mutations in RAB39B have been reported as a potential cause of X-linked Parkinson's disease (PD), a rare form of familial PD. We conducted a genetic analysis on RAB39B to evaluate whether RAB39B mutations are related to PD in the Chinese population.

Methods: In this study, 2 patients from an X-linked juvenile parkinsonism pedigree were clinically characterized and underwent whole-exome sequencing. A comprehensive screening for RAB39B mutations in 505 sporadic patients with PD and 510 healthy controls in a Chinese population was also performed.

Results: A novel mutation, c. 536dupA (p.E179fsX48), in RAB39B was identified in the juvenile parkinsonism pedigree. Brain MRI and CT scans in the 2 patients revealed calcification within the bilateral globus pallidus. No other potentially disease-causing RAB39B mutations were found in sporadic PD patients and controls.

Conclusions: X-linked juvenile parkinsonism could be caused by a RAB39B mutation, and basal ganglia calcification may be a novel clinical feature of RAB39B-related parkinsonism. © 2016 International Parkinson and Movement Disorder Society.
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http://dx.doi.org/10.1002/mds.26828DOI Listing
December 2016

Recessive hereditary motor and sensory neuropathy caused by IGHMBP2 gene mutation.

Neurology 2015 Jul 1;85(4):383-4. Epub 2015 Jul 1.

From the Department of Neurology (C-h.S., B.S., H-y.L., C-y.M., D-d.S., Y.C., S-l.S., J.W., Y-m.X.), The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, Zhengzhou, Henan, China; and Surgical Neurology Branch (Z-p.Z.), National Institute of Neurological Disorders and Stroke, Bethesda, MD.

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http://dx.doi.org/10.1212/WNL.0000000000001747DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4520818PMC
July 2015

Exome sequencing reveals novel SPG11 mutation in hereditary spastic paraplegia with complicated phenotypes.

J Clin Neurosci 2015 Jul 21;22(7):1150-4. Epub 2015 May 21.

Department of Neurology, The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, 1 Jian-she East Road, Zhengzhou 450000, Henan, China; Institute of Clinical Medicine, The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, Zhengzhou, Henan, China. Electronic address:

We used a combined approach of whole-exome sequencing and candidate mutation validation to identify the disease-causing gene in a hereditary spastic paraplegia (HSP) patient with lower motor neuron involvement, mild cerebellar signs and dysgenesis of the corpus callosum. HSP is a clinically and genetically heterogeneous neurodegenerative disorder characterized by degeneration of the corticospinal tract motor neurons and resulting in progressive lower limb spasticity, often with a complicated phenotype. We identified novel compound heterozygous mutations in the SPG11 gene in this patient as follows: a mutation in exon 32, c.6194C > G transition (p.S2056X) and a novel c.5121+1C > T splicing mutation. Our finding suggests that these novel compound heterozygous mutations in SPG11 are associated with HSP and lower motor neuron involvement, mild cerebellar signs and dysgenesis of the corpus callosum. This study also demonstrates that exome sequencing is an efficient and rapid diagnostic tool for identifying the causes of some complex and genetically heterogeneous neurodegenerative diseases.
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http://dx.doi.org/10.1016/j.jocn.2015.01.014DOI Listing
July 2015

Ethylene/propylene copolymerization catalyzed by vanadium complexes containing N-heterocyclic carbenes.

Dalton Trans 2015 Sep;44(34):15264-70

State Key Laboratory of Chemical Resource Engineering, Key Laboratory of carbon fiber and functional polymers, Ministry of Education, Beijing University of Chemical Technology, Beijing 100029, China.

Various vanadium complexes containing N-heterocyclic carbenes, VOCl3[1,3-R2(NCH=)2C:] (V1, R = 2,6-Me2C6H3; V2, R = 2,6-Et2C6H3; V3, R = 2,6-(i)Pr2C6H3; V4, R = 2,4,6-Me3C6H2), have been synthesized and employed as catalyst precursors for ethylene/propylene copolymerization after activation by Et3Al2Cl3. Complex V4 showed higher catalytic activity of ca. 38 kg copolymer per (mol of V) per h and an ethylene/propylene copolymer with random monomer distribution could be prepared. Complex V3 consumed more cocatalyst than its analogues to reach higher catalytic activity. The obtained copolymers exhibit relatively narrow polydispersity and contain more randomly distributed monomer units than that the copolymers prepared by using the traditional vanadium catalytic system.
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http://dx.doi.org/10.1039/c5dt00675aDOI Listing
September 2015

Genotype-phenotype correlation in a cohort of paroxysmal kinesigenic dyskinesia cases.

J Neurol Sci 2014 May 3;340(1-2):91-3. Epub 2014 Mar 3.

Department of Neurology, The First Affiliated Hospital of Zhengzhou University, Zhengzhou University, Zhengzhou, 450000 Henan, People's Republic of China. Electronic address:

Background: Recently, PRRT2 gene mutations have been identified as a causative factor of paroxysmal kinesigenic dyskinesia (PKD). However, evidence is still lacking with respect to the genotype to phenotype correlation in PKD patients.

Methods: We recruited a cohort of PKD patients with or without PRRT2 mutations for the study, and followed them for 6 months to observe the response to carbamazepine treatment.

Results: Thirty-four participants were included in this study; 16 patients were positive for a hot-spot p.R217Pfs 8 heterozygous PRRT2 gene mutation, while the other 18 patients were negative for PRRT2 gene mutations. PRRT2 mutations were found to be associated with a younger age of onset, bilateral presence and a higher frequency of attacks. Furthermore, the follow-up study revealed that p.R217Pfs 8-positive patients showed dramatic improvement with complete abolition of dyskinetic episodes with carbamazepine treatment, while only 7 of the 18 patients without PRRT2 mutations showed a response to the antiepileptic drug.

Conclusions: Our study indicated that positivity for PRRT2 mutation is a predictor of younger age of onset and more frequent of attacks in PKD patients. Interestingly, the presence of PRRT2 mutations also predicted a good response to carbamazepine therapy, especially at low dose. Therefore, genetic testing shows potential clinical significance for guiding the choice of medication for individual PKD cases.
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http://dx.doi.org/10.1016/j.jns.2014.02.034DOI Listing
May 2014
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