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Qiu T.,Beijing Academy of Agriculture and Forestry Sciences | Qiu T.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | Zuo Z.,Beijing Academy of Agriculture and Forestry Sciences | Zuo Z.,Northeast Dianli University | And 8 more authors.
International Journal of Systematic and Evolutionary Microbiology | Year: 2015

A novel Gram-stain-negative, facultatively aerobic and rod-shaped strain, designated SL-205T, was isolated from the biofilms of a denitrifying reactor using poly(3-hydoxybutyrate-co-3-hydroxyvalerate) as the sole carbon source in Beijing, PR China. A polyphasic taxonomic characterization was performed on the novel isolate. Phylogenetic analyses based on the 16S rRNA gene sequence revealed that strain SL-205T is a member of the genus Diaphorobacter.High levels of 16S rRNA gene sequence similarity were found between strain SL-205T andDiaphorobacter nitroreducens NA10BT (99.4%) and Diaphorobacter oryzae RF3T (98.5%), respectively. However, the DNA–DNA relatedness values between strain SL-205T and D. nitroreducens NA10BT and D. oryzae RF3T were 57±1% and 45±1.5%, respectively. The G+C content of the genomic DNA of strain SL-205T was 66.8mol%. The major fatty acids consisted of summed feature 3 (including C16:1ω7c and/or iso-C15:0 2-OH), C16:0 and C18:1ω7c. Ubiquinone Q-8 was the only respiratory quinone; the polar lipid profile comprised phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and one uncharacterized phospholipid. We conclude that strain SL-205T represents a novel species of the genus Diaphorobacter for which the name Diaphorobacter polyhydroxybutyrativorans is proposed; the type strain is SL-205T (=ACCC 19739T=DSM 29460T). © 2015 IUMS. Source


Zhang Z.,Beijing Academy of Agriculture and Forestry Sciences | Zhang Z.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | Li X.,Beijing Academy of Agriculture and Forestry Sciences | Li X.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | And 7 more authors.
Molecular Genetics and Genomics | Year: 2015

TIFY, previously known as ZIM, comprises a plant-specific family annotated as transcription factors that might play important roles in stress response. Despite TIFY proteins have been reported in Arabidopsis and rice, a comprehensive and systematic survey of ZmTIFY genes has not yet been conducted. To investigate the functions of ZmTIFY genes in this family, we isolated and characterized 30 ZmTIFY (1 TIFY, 3 ZML, and 26 JAZ) genes in an analysis of the maize (Zea mays L.) genome in this study. The 30 ZmTIFY genes were distributed over eight chromosomes. Multiple alignment and motif display results indicated that all ZmTIFY proteins share two conserved TIFY and Jas domains. Phylogenetic analysis revealed that the ZmTIFY family could be divided into two groups. Putative cis-elements, involved in abiotic stress response, phytohormones, pollen grain, and seed development, were detected in the promoters of maize TIFY genes. Microarray data showed that the ZmTIFY genes had tissue-specific expression patterns in various maize developmental stages and in response to biotic and abiotic stresses. The results indicated that ZmTIFY4, 5, 8, 26, and 28 were induced, while ZmTIFY16, 13, 24, 27, 18, and 30 were suppressed, by drought stress in the maize inbred lines Han21 and Ye478. ZmTIFY1, 19, and 28 were upregulated after infection by three pathogens, whereas ZmTIFY4, 13, 21, 23, 24, and 26 were suppressed. These results indicate that the ZmTIFY family may have vital roles in response to abiotic and biotic stresses. The data presented in this work provide vital clues for further investigating the functions of the genes in the ZmTIFY family. © 2015, Springer-Verlag Berlin Heidelberg. Source


Zhang Z.,Beijing Academy of Agriculture and Forestry Sciences | Zhang Z.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | Chen Y.,Beijing Academy of Agriculture and Forestry Sciences | Chen Y.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | And 10 more authors.
Functional and Integrative Genomics | Year: 2014

X1-homologous genes (XHS) encode plant specific proteins containing three basic domains (XH, XS, zf-XS). In spite of their physiological importance, systematic analyses of ZmXHS genes have not yet been explored. In this study, we isolated and characterized ten ZmXHS genes in a whole-of-genome analysis of the maize genome. A total of ten members of this family were identified in maize genome. The ten ZmXHS genes were distributed on seven maize chromosomes. Multiple alignment and motif display results revealed that most ZmXHS proteins share all the three conserved domains. Putative cis-elements involved in abiotic stress responsive, phytohormone, pollen-specific and quantitative, seed development and germination, light and circadian rhythms regulation, Ca 2+-responsive, root hair cell-specific, and CO2-responsive transcriptional activation were observed in the promoters of ZmXHS genes. Yeast hybrid assay revealed that the XH domain of ZmXHS5 was necessary for interaction with itself and ZmXHS2. Microarray data showed that the ZmXHS genes had tissue-specific expression patterns in the maize developmental steps and biotic stresses response. Quantitative real-time PCR analysis results indicated that, except ZmXHS9, the other nine ZmXHS genes were induced in the seedling leaves by at least one of the four abiotic stresses applied. © 2013 Springer-Verlag Berlin Heidelberg. Source


Zhang Z.,Beijing Academy of Agriculture and Forestry Sciences | Zhang Z.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | Zhang J.,Beijing Academy of Agriculture and Forestry Sciences | Zhang J.,Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology | And 10 more authors.
Molecular Biology Reports | Year: 2014

Hexokinases (HXKs, EC 2.7.1.1) play important roles in metabolism, glucose (Glc) signaling, and phosphorylation of Glc and fructose and are ubiquitous in all organisms. Despite their physiological importance, the maize HXK (ZmHXK) genes have not been analyzed systematically. We isolated and characterized nine members of the ZmHXK gene family which were distributed on 3 of the 10 maize chromosomes. A multiple sequence alignment and motif analysis revealed that the maize ZmHXK proteins share three conserved domains. Phylogenetic analysis revealed that the ZmHXK family can be divided into four subfamilies. We identified putative cis-elements in the ZmHXK promoter sequences potentially involved in phytohormone and abiotic stress responses, sugar repression, light and circadian rhythm regulation, Ca2+ responses, seed development and germination, and CO2-responsive transcriptional activation. To study the functions of maize HXK isoforms, we characterized the expression of the ZmHXK5 and ZmHXK6 genes, which are evolutionarily related to the OsHXK5 and OsHXK6 genes from rice. Analysis of tissue-specific expression patterns using quantitative real time-PCR showed that ZmHXK5 was highly expressed in tassels, while ZmHXK6 was expressed in both tassels and leaves. ZmHXK5 and ZmHXK6 expression levels were upregulated by phytohormones and by abiotic stress. © 2014 Springer Science+Business Media. Source

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