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  • Guo, Lixue  (15)
  • Huang, Hui  (15)
  • 1
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    Table9.XLSX
    Frontiers Media SA ; 2022
    In:  Frontiers in Molecular Biosciences Vol. 9 ( 2022-9-13)
    Details
    In: Frontiers in Molecular Biosciences, Frontiers Media SA, Vol. 9 ( 2022-9-13)
    Abstract: Glycosyltransferases mainly catalyse the glycosylation reaction in living organisms and widely exists in plants. UGTs have been identified from G. raimondii , G. arboreum and G. hirsutum . However, Genome-wide systematic analysis of UGTs superfamily have not been studied in G. barbadense . 752 UGTs were identified from four cotton species and grouped into 18 clades, of which R was newly discovered clades. Most UGTs were clustered at both ends of the chromosome and showed a heterogeneous distribution. UGT proteins were widely distributed in cells, with the highest distribution in chloroplasts. UGTs of the same clade shared similar intron/exon structural features. During evolution, the gene family has undergone strong selection for purification. UGTs were significantly enriched in “transcriptional activity (GO:0016758)” and “metabolic processes (GO:0008152)”. Genes from the same clade differed in function under various abiotic stresses. The analysis of cis-acting element and qRT–PCR may indicate that GHUGT s play important roles in plant growth, development and abiotic stress. We further found that GHUGT74-2 plays an important role under submergence. The study broadens the understanding of UGTs in terms of gene characteristics, evolutionary processes, and gene function in cotton and provides a new way to systematically and globally understand the structure–function relationship of multigene families in the evolutionary process.
    Type of Medium: Online Resource
    ISSN: 2296-889X
    URL: Article
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    DOI: 10.3389/fmolb.2022.965403
    DOI: 10.3389/fmolb.2022.965403.s001
    DOI: 10.3389/fmolb.2022.965403.s002
    DOI: 10.3389/fmolb.2022.965403.s003
    DOI: 10.3389/fmolb.2022.965403.s004
    DOI: 10.3389/fmolb.2022.965403.s005
    DOI: 10.3389/fmolb.2022.965403.s006
    DOI: 10.3389/fmolb.2022.965403.s007
    DOI: 10.3389/fmolb.2022.965403.s008
    DOI: 10.3389/fmolb.2022.965403.s009
    DOI: 10.3389/fmolb.2022.965403.s010
    DOI: 10.3389/fmolb.2022.965403.s011
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2814330-9
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  • 2
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    Combined transcriptomic and metabolomic analyses elucidate key salt-responsive biomarkers to regulate salt tolerance in cotton
    Springer Science and Business Media LLC ; 2023
    In:  BMC Plant Biology Vol. 23, No. 1 ( 2023-05-10)
    Details
    In: BMC Plant Biology, Springer Science and Business Media LLC, Vol. 23, No. 1 ( 2023-05-10)
    Abstract: Cotton is an important industrial crop and a pioneer crop for saline-alkali land restoration. However, the molecular mechanism underlying the cotton response to salt is not completely understood. Methods Here, we used metabolome data and transcriptome data to analyze the salt tolerance regulatory network of cotton and metabolic biomarkers. Results In this study, cotton was stressed at 400 m M NaCl for 0 h, 3 h, 24 h and 48 h. NaCl interfered with cotton gene expression, altered metabolite contents and affected plant growth. Metabolome analysis showed that NaCl stress increased the contents of amino acids, sugars and ABA, decreased the amount of vitamin and terpenoids. K-means cluster analysis of differentially expressed genes showed that the continuously up-regulated genes were mainly enriched in metabolic pathways such as flavonoid biosynthesis and amino acid biosynthesis. Conclusion The four metabolites of cysteine (Cys), ABA(Abscisic acid), turanose, and isopentenyladenine-7-N-glucoside (IP7G) were consistently up-regulated under salt stress, which may indicate that they are potential candidates for cotton under salt stress biomarkers. Combined transcriptome and metabolome analysis revealed accumulation of cysteine, ABA, isopentenyladenine-7-N-glucoside and turanose were important for salt tolerance in cotton mechanism. These results will provide some metabolic insights and key metabolite biomarkers for salt stress tolerance, which may help to understanding of the metabolite response to salt stress in cotton and develop a foundation for cotton to grow better in saline soil.
    Type of Medium: Online Resource
    ISSN: 1471-2229
    URL: Article
    DOI: 10.1186/s12870-023-04258-z
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2023
    detail.hit.zdb_id: 2059868-3
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  • 3
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    GhIMP10D, an inositol monophosphates family gene, enhances ascorbic acid and antioxidant enzyme activities to confer alkaline tolerance in Gossypium hirsutum L.
    Springer Science and Business Media LLC ; 2023
    In:  BMC Plant Biology Vol. 23, No. 1 ( 2023-09-22)
    Details
    In: BMC Plant Biology, Springer Science and Business Media LLC, Vol. 23, No. 1 ( 2023-09-22)
    Abstract: Inositol monophosphates (IMP) are key enzymes in the ascorbic acid (AsA) synthesis pathways, which play vital roles in regulating plant growth and development and stresses tolerance. To date, no comprehensive analysis of the expression profile of IMP genes and their functions under abiotic stress in cotton has been reported. Results In this study, the genetic characteristics, phylogenetic evolution, cis -acting elements and expression patterns of IMP gene family in cotton were systematically analyzed. A total of 28, 27, 13 and 13 IMP genes were identified in Gossypium hirsutum ( G. hirsutum ), Gossypium barbadense ( G. barbadense ), Gossypium arboreum ( G. arboreum ), and Gossypium raimondii ( G. raimondii ), respectively. Phylogenetic analysis showed that IMP family genes could cluster into 3 clades. Structure analysis of genes showed that GhIMP genes from the same subgroup had similar genetic structure and exon number. And most GhIMP family members contained hormone-related elements (abscisic acid response element, MeJA response element, gibberellin response element) and stress-related elements (low temperature response element, defense and stress response element, wound response element). After exogenous application of abscisic acid (ABA), some GhIMP genes containing ABA response elements positively responded to alkaline stress, indicating that ABA response elements played an important role in response to alkaline stress. qRT-PCR showed that most of GhIMP genes responded positively to alkaline stress, and GhIMP10D significantly upregulated under alkaline stress, with the highest up-regulated expression level. Virus-induced gene silencing (VIGS) experiment showed that compared with 156 plants, MDA content of pYL156: GhIMP10D plants increased significantly, while POD, SOD, chlorophyII and AsA content decreased significantly. Conclusions This study provides a thorough overview of the IMP gene family and presents a new perspective on the evolution of this gene family. In particular, some IMP genes may be involved in alkaline stress tolerance regulation, and GhIMP10D showed high expression levels in leaves, stems and roots under alkaline stress, and preliminary functional verification of GhIMP10D gene suggested that it may regulate tolerance to alkaline stress by regulating the activity of antioxidant enzymes and the content of AsA. This study contributes to the subsequent broader discussion of the structure and alkaline resistance of IMP genes in cotton.
    Type of Medium: Online Resource
    ISSN: 1471-2229
    URL: Article
    DOI: 10.1186/s12870-023-04462-x
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2023
    detail.hit.zdb_id: 2059868-3
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  • 4
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    Table2.xlsx
    Frontiers Media SA ; 2023
    In:  Frontiers in Genetics Vol. 14 ( 2023-6-7)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 14 ( 2023-6-7)
    Abstract: Identification, evolution, and expression patterns of BSK (BR signaling kinase) family genes revealed that BSKs participated in the response of cotton to abiotic stress and maintained the growth of cotton in extreme environment. The steroidal hormone brassinosteroids (BR) play important roles in different plant biological processes. This study focused on BSK which were downstream regulatory element of BR, in order to help to decipher the functions of BSKs genes from cotton on growth development and responses to abiotic stresses and lean the evolutionary relationship of cotton BSKs. BSKs are a class of plant-specific receptor-like cytoplasmic kinases involved in BR signal transduction. In this study, bioinformatics methods were used to identify the cotton BSKs gene family at the cotton genome level, and the gene structure, promoter elements, protein structure and properties, gene expression patterns and candidate interacting proteins were analyzed. In the present study, a total of 152 BSKs were identified by a genome-wide search in four cotton species and other 11 plant species, and phylogenetic analysis revealed three evolutionary clades. It was identified that BSKs contain typical PKc and TPR domains, the N-terminus is composed of extended chains and helical structures. Cotton BSKs genes show different expression patterns in different tissues and organs. The gene promoter contains numerous cis -acting elements induced by hormones and abiotic stress, the hormone ABA and Cold-inducing related elements have the highest count, indicating that cotton BSK genes may be regulated by various hormones at different growth stages and involved in the response regulation of cotton to various stresses. The expression analysis of BSKs in cotton showed that the expression levels of GhBSK06 , GhBSK10 , GhBSK21 and GhBSK24 were significantly increased with salt-inducing. This study is helpful to analyze the function of cotton BSKs genes in growth and development and in response to stress.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.3389/fgene.2023.1169104
    DOI: 10.3389/fgene.2023.1169104.s001
    DOI: 10.3389/fgene.2023.1169104.s002
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2023
    detail.hit.zdb_id: 2606823-0
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  • 5
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    Table_3.xlsx
    Frontiers Media SA ; 2023
    In:  Frontiers in Plant Science Vol. 14 ( 2023-12-19)
    Details
    In: Frontiers in Plant Science, Frontiers Media SA, Vol. 14 ( 2023-12-19)
    Abstract: A-galactosidases (AGALs), the oligosaccharide (RFO) catabolic genes of the raffinose family, play crucial roles in plant growth and development and in adversity stress. They can break down the non-reducing terminal galactose residues of glycolipids and sugar chains. In this study, the whole genome of AGALs was analyzed. Bioinformatics analysis was conducted to analyze members of the AGAL family in Gossypium hirsutum , Gossypium arboreum , Gossypium barbadense , and Gossypium raimondii. Meanwhile, RT-qPCR was carried out to analyze the expression patterns of AGAL family members in different tissues of terrestrial cotton. It was found that a series of environmental factors stimulated the expression of the GhAGAL3 gene. The function of GhAGAL3 was verified through virus-induced gene silencing (VIGS). As a result, GhAGAL3 gene silencing resulted in milder wilting of seedlings than the controls, and a significant increase in the raffinose content in cotton, indicating that GhAGAL3 responded to NaCl stress. The increase in raffinose content improved the tolerance of cotton. Findings in this study lay an important foundation for further research on the role of the GhAGAL3 gene family in the molecular mechanism of abiotic stress resistance in cotton.
    Type of Medium: Online Resource
    ISSN: 1664-462X
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.3389/fpls.2023.1246677
    DOI: 10.3389/fpls.2023.1246677.s001
    DOI: 10.3389/fpls.2023.1246677.s002
    DOI: 10.3389/fpls.2023.1246677.s003
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2023
    detail.hit.zdb_id: 2687947-5
    detail.hit.zdb_id: 2613694-6
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  • 6
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    GhAAO2 was observed responding to NaHCO3 stress in cotton compared to AAO family genes
    Springer Science and Business Media LLC ; 2022
    In:  BMC Plant Biology Vol. 22, No. 1 ( 2022-12-20)
    Details
    In: BMC Plant Biology, Springer Science and Business Media LLC, Vol. 22, No. 1 ( 2022-12-20)
    Abstract: Abscisic acid (ABA) is an important stress hormone, the changes of abscisic acid content can alter plant tolerance to stress, abscisic acid is crucial for studying plant responses to abiotic stress. The abscisic acid aldehyde oxidase (AAO) plays a vital role in the final step in the synthesis of abscisic acid, therefore, understanding the function of AAO gene family is of great significance for plants to response to abiotic stresses. Result In this study, 6, 8, 4 and 4 AAO genes were identified in four cotton species. According to the structural characteristics of genes and the traits of phylogenetic tree, we divided the AAO gene family into 4 clades. Gene structure analysis showed that the AAO gene family was relatively conservative. The analysis of cis -elements showed that most AAO genes contained cis -elements related to light response and plant hormones. Tissue specificity analysis under NaHCO 3 stress showed that GhAAO2 gene was differentially expressed in both roots and leaves. After GhAAO2 gene silencing, the degree of wilting of seedlings was lighter than that of the control group, indicating that GhAAO2 could respond to NaHCO 3 stress. Conclusions In this study, the AAO gene family was analyzed by bioinformatics, the response of GhAAO gene to various abiotic stresses was preliminarily verified, and the function of the specifically expressed gene GhAAO2 was further verified. These findings provide valuable information for the study of potential candidate genes related to plant growth and stress.
    Type of Medium: Online Resource
    ISSN: 1471-2229
    URL: Article
    DOI: 10.1186/s12870-022-03999-7
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2022
    detail.hit.zdb_id: 2059868-3
    SSG: 12
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  • 7
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    Molecular structures and functional exploration of NDA family genes respond tolerant to alkaline stress in Gossypium hirsutum L.
    Springer Science and Business Media LLC ; 2022
    In:  Biological Research Vol. 55, No. 1 ( 2022-12)
    Details
    In: Biological Research, Springer Science and Business Media LLC, Vol. 55, No. 1 ( 2022-12)
    Abstract: The internal NAD(P)H dehydrogenase (NDA) gene family was a member of the NAD(P)H dehydrogenase (ND) gene family, mainly involved in the non-phosphorylated respiratory pathways in mitochondria and played crucial roles in response to abiotic stress. Methods The whole genome identification, structure analysis and expression pattern of NDA gene family were conducted to analyze the NDA gene family. Results There were 51, 52, 26, and 24 NDA genes identified in G. hirsutum , G. barbadense , G. arboreum and G. raimondii , respectively. According to the structural characteristics of genes and traits of phylogenetic tree, we divided the NDA gene family into 8 clades. Gene structure analysis showed that the NDA gene family was relatively conservative. The four Gossypium species had good collinearity, and segmental duplication played an important role in the evolution of the NDA gene family. Analysis of cis -elements showed that most GhNDA genes contained cis -elements related to light response and plant hormones (ABA, MeJA and GA). The analysis of the expression patterns of GhNDA genes under different alkaline stress showed that GhNDA genes were actively involved in the response to alkaline stress, possibly through different molecular mechanisms. By analyzing the existing RNA-Seq data after alkaline stress, it was found that an NDA family gene GhNDA32 was expressed, and then the GhNDA32 was silenced by virus-induced gene silencing (VIGS). By observing the phenotype, we found that the wilting degree of silenced plants was much higher than that of the control plant after alkaline treatment, suggesting that GhNDA32 gene was involved in the response to alkaline stress. Conclusions In this study, GhNDAs participated in response to alkaline stress, especially NaHCO 3 stress. It was of great significance for the future research on the molecular mechanism of NDA gene family in responding to abiotic stresses.
    Type of Medium: Online Resource
    ISSN: 0717-6287
    URL: Article
    DOI: 10.1186/s40659-022-00372-8
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2022
    detail.hit.zdb_id: 2048380-6
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  • 8
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    GhCYS2 governs the tolerance against cadmium stress by regulating cell viability and photosynthesis in cotton
    Elsevier BV ; 2023
    In:  Ecotoxicology and Environmental Safety Vol. 263 ( 2023-09), p. 115386-
    Details
    In: Ecotoxicology and Environmental Safety, Elsevier BV, Vol. 263 ( 2023-09), p. 115386-
    Type of Medium: Online Resource
    ISSN: 0147-6513
    URL: Article
    DOI: 10.1016/j.ecoenv.2023.115386
    Language: English
    Publisher: Elsevier BV
    Publication Date: 2023
    detail.hit.zdb_id: 1466969-9
    SSG: 24,1
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  • 9
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    Systematic analysis and expression of Gossypium 2ODD superfamily highlight the roles of GhLDOXs responding to alkali and other abiotic stress in cotton
    Springer Science and Business Media LLC ; 2023
    In:  BMC Plant Biology Vol. 23, No. 1 ( 2023-03-04)
    Details
    In: BMC Plant Biology, Springer Science and Business Media LLC, Vol. 23, No. 1 ( 2023-03-04)
    Abstract: 2-oxoglutarate-dependent dioxygenase (2ODD) is the second largest family of oxidases involved in various oxygenation/hydroxylation reactions in plants. Many members in the family regulate gene transcription, nucleic acid modification/repair and secondary metabolic synthesis. The 2ODD family genes also function in the formation of abundant flavonoids during anthocyanin synthesis, thereby modulating plant development and response to diverse stresses. Results Totally, 379, 336, 205, and 204 2ODD genes were identified in G. barbadense (Gb), G. hirsutum (Gh), G. arboreum (Ga), and G. raimondii (Gb), respectively. The 336 2ODDs in G. hirsutum were divided into 15 subfamilies according to their putative functions. The structural features and functions of the 2ODD members in the same subfamily were similar and evolutionarily conserved. Tandem duplications and segmental duplications served essential roles in the large-scale expansion of the cotton 2ODD family. Ka/Ks values for most of the gene pairs were less than 1, indicating that 2ODD genes undergo strong purifying selection during evolution. Gh2ODDs might act in cotton responses to different abiotic stresses. GhLDOX3 and GhLDOX7 , two members of the GhLDOX subfamily from Gh2ODDs , were significantly down-regulated in transcription under alkaline stress. Moreover, the expression of GhLDOX3 in leaves was significantly higher than that in other tissues. These results will provide valuable information for further understanding the evolution mechanisms and functions of the cotton 2ODD genes in the future. Conclusions Genome-wide identification, structure, and evolution and expression analysis of 2ODD genes in Gossypium were carried out. The 2ODDs were highly conserved during evolutionary. Most Gh2ODDs were involved in the regulation of cotton responses to multiple abiotic stresses including salt, drought, hot, cold and alkali.
    Type of Medium: Online Resource
    ISSN: 1471-2229
    URL: Article
    DOI: 10.1186/s12870-023-04133-x
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2023
    detail.hit.zdb_id: 2059868-3
    SSG: 12
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  • 10
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    GhNFYA16 was functionally observed positively responding to salt stress by genome-wide identification of NFYA gene family in cotton
    Springer Science and Business Media LLC ; 2022
    In:  Environmental Sciences Europe Vol. 34, No. 1 ( 2022-12)
    Details
    In: Environmental Sciences Europe, Springer Science and Business Media LLC, Vol. 34, No. 1 ( 2022-12)
    Abstract: Nuclear transcription factor Y subunit A ( NFYA ) plays an important role in plant growth, development, and response to abiotic stress. Results This study systematically analyzed the NFYA gene family. Chromosome location analysis found that some NFYA genes in Gossypium hirsutum may have been lost during evolution. Collinearity analysis and selection pressure analysis indicated that the GhNFYA gene family underwent fragment duplication and whole genome duplication during evolution. At the same time, promoter cis -element analysis and gene interaction network analysis predicted that the expression of GhNFYA gene may be regulated by plant hormones and stress. To further explore the function of the gene, Gossypium hirsutum seedlings were treated with 4 °C, 37 °C, salt and PEG stress, respectively, found that the expression of NFYA is stimulated by multiple environments. By constructing a co-expression network, interactions between genes were found to defend against salt stress. Through virus-induced gene silencing experiments, it was found that plants that silenced the GhNFYA16 gene were significantly more sensitive to salt stress. Conclusions This study found the relationship between the structure and function of NFYA gene family, provided a basis for the biological identification and functional verification of NFYA family members, and provided clues to clarify the specific roles of different types of NFYA proteins under different abiotic stress.
    Type of Medium: Online Resource
    ISSN: 2190-4707 , 2190-4715
    URL: Article
    DOI: 10.1186/s12302-022-00674-4
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2022
    detail.hit.zdb_id: 2593962-2
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