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Identification of QTLs and candidate genes for physiological traits associated with drought tolerance in cotton

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Journal of Cotton Research 2020年第1期3卷 13-45页

作者： MAGWANGA Richard Odongo LU Pu kirungu joy nyangasi CAI Xiaoyan ZHOU Zhongli AGONG Stephen Gaya WANG Kunbo LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural SciencesAnyang 455000HenanChina Jaramogi Oginga Odinga University of Science and Technology P.O Box 210-40601BondoKenya

Background:Cotton is mainly grown for its natural fiber and edible *** fiber obtained from cotton is the indispensable raw material for the textile *** ever changing climatic condition,threatens cotton production due to a lack of sufficient water for its *** of drought stress are estimated to affect more than 50%of the cotton growing *** elucidate the drought tolerance phenomenon in cotton,a backcross population was developed from ***,a drought tolerant donor parent and *** which is highly susceptible to drought ***:A genetic map of 10888 SNP markers was developed from 200 BC_2F_2 *** map spanned 4191.3 centi-Morgan(c M),with an average distance of 0.1047 c M,covering 51%and 49%of At and Dt sub genomes,*** stable Quantitative trait loci(QTLs)were detected,in which more than a half were detected in the At ***-nine candidate genes were mined within the QTL regions for three traits:cell membrane stability(CMS),saturated leaf weight(SLW)and chlorophyll *** genes had varied physiochemical properties.A majority of the genes were interrupted by introns,and only 15 genes were intronless,accounting for 17%of the mined *** genes were found to be involved molecular function(MF),cellular component(CC)and biological process(BP),which are the main gene ontological(GO)functions.A number of mi RNAs were detected,such as mi R164,which is associated with NAC and MYB genes,with a profound role in enhancing drought tolerance in *** RT-q PCR analysis,5 genes were found to be the key genes involved in enhancing drought tolerance in *** cotton harbors a number of favorable alleles,which can be exploited to aid in improving the narrow genetic base of the elite cotton *** detection of 30 stable QTLs and 89 candidate genes found to be contributed by the donor parent,***,showed the significant genes harbored by the wild progenitors which

关键词： Cotton spp. Quantitative trait loci Genetic map Drought tolerance mi RNAs Gene ontology

Knockdown of 60S ribosomal protein L14‑2 reveals their potential regulatory roles to enhance drought and salt tolerance in cotton

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Journal of Cotton Research 2021年第4期4卷 308-321页

作者： SHIRAKU Margaret Linyerera MAGWANGA Richard Odongo CAI Xiaoyan kirungu joy nyangasi XU Yanchao MEHARI Teame Gereziher HOU Yuqing WANG Yuhong WANG Kunbo PENG Renhai ZHOU Zhongli LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural Science(ICRCAAS)Anyang 455000HenanChina School of Biological and Physical Sciences(SBPS) Main CampusJaramogi Oginga Odinga University of Science and Technology(JOOUST)Main CampusP.O.Box 210‑40601BondoKenya Anyang Institute of Technology Anyang 455000HenanChina School of Agricultural Sciences Zhengzhou UniversityZhengzhou 450001HenanChina

Background:Cotton is a valuable economic crop and the main significant source of natural fiber for textile industries *** effects of drought and salt stress pose a challenge to strong fiber and large-scale production due to the ever-changing climatic ***,plants have evolved a number of survival strategies,among them is the induction of various stress-responsive genes such as the ribosomal protein large(RPL)*** RPL gene families encode critical proteins,which alleviate the effects of drought and salt stress in *** this study,comprehensive and functional analysis of the cotton RPL genes was carried out under drought and salt ***:Based on the genome-wide evaluation,26,8,and 5 proteins containing the RPL14B domain were identified in Gossypium hirsutum,***,and ***,***,through bioinformatics analysis,key cis-regulatory elements related to RPL14B genes were *** Myb binding sites(MBS),abscisic acid-responsive element(ABRE),CAAT-box,TATA box,TGACG-motif,and CGTCA-motif responsive to methyl jasmonate,as well as the TCA-motif responsive to salicylic acid,were *** analysis revealed a key gene,Gh_D01G0234(RPL14B),with significantly higher induction levels was further evaluated through a reverse genetic *** knockdown of Gh_D01G0234(RPL14B)significantly affected the performance of cotton seedlings under drought/salt stress conditions,as evidenced by a substantial reduction in various morphological and physiological ***,the level of the antioxidant enzyme was significantly reduced in VIGS-plants,while oxidant enzyme levels increased significantly,as demonstrated by the higher malondialdehyde concentration ***:The results revealed the potential role of the RPL14B gene in promoting the induction of antioxidant enzymes,which are key in oxidizing the various *** key pathways need to be investigated and even as we exploit these genes

关键词： Abiotic stress Cotton Ribosomal protein large Transcription factor Virus-induced gene silencing

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Genome wide identification and characterization of light-harvesting Chloro a/b binding(LHC)genes reveals their potential role in enhancing drought tolerance in Gossypium hirsutum

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Journal of Cotton Research 2021年第2期4卷 147-159页

作者： MEHARI Teame Gereziher XU Yanchao MAGWANGA Richard Odongo UMER Muhammad Jawad kirungu joy nyangasi CAI Xiaoyan HOU Yuqing WANG Yuhong YU Shuxun WANG Kunbo ZHOU Zhongli LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural Sciences(ICRCAAS)Anyang455000HenanChina Ethiopian Institute of Agricultural Research Mekhoni Agricultural Research CenterP.O.Box 47MekhoniTigrayEthiopia School of Biological and Physical Sciences(SBPS) Main CampusJaramogi Oginga Odinga University of Science and Technology(JOOUST)Main CampusP.O.Box 210-40601BondoKenya School of Agricultural Sciences Zhengzhou UniversityZhengzhouHenan450001China

Background: Cotton is an important commercial crop for being a valuable source of natural *** production has undergone a sharp decline because of abiotic stresses,*** is one of the major abiotic stress causing significant yield losses in ***,plants have evolved self-defense mechanisms to cope abiotic factors like drought,salt,cold,*** evolution of stress responsive transcription factors such as the trihelix,a nodule-inception-like protein(NLP),and the late embryogenesis abundant proteins have shown positive response in the resistance improvement to several abiotic ***: Genome wide identification and characterization of the effects of Light-Harvesting Chloro a/b binding(LHC)genes were carried out in cotton under drought stress conditions.A hundred and nine proteins encoded by the LHC genes were found in the cotton genome,with 55,27,and 27 genes found to be distributed in Gossypium hirsutum,***,and ***,*** proteins encoded by the genes were unevenly distributed on various *** Ka/Ks(Non-synonymous substitution rate/Synonymous substitution rate)values were less than one,an indication of negative selection of the gene *** expressions of genes showed that majority of the genes are being highly upregulated in the roots as compared with leaves and stem *** genes were found to be highly expressed in MR-85,a relative drought tolerant ***: The results provide proofs of the possible role of the LHC genes in improving drought stress tolerance,and can be explored by cotton breeders in releasing a more drought tolerant cotton varieties.

关键词： Cotton G hirsutum LHC genes Gene expression Drought tolerance

Genome-wide identification and analysis of the CNGC gene family in upland cotton under multiple stress conditions

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Journal of Cotton Research 2023年第3期6卷 195-208页

作者： kirungu joy nyangasi MAGWANGA Richard Odongo SHIRAKU Margaret Linyerera OKUTO Erick CAI Xiaoyan XU Yanchao HOU Yuqing AGONG' Stephen Gaya WANG Kunbo WANG Yuhong ZHOU Zhongli LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural Science(ICR-CAAS)AnyangHenan 455000China School of Biological PhysicalMathematics and Actuarial Sciences(SBPMAS)Jaramogi Oginga Odinga University of Science and Technology(JOOUST)Bondo210‑40601Kenya School of Agricultural Sciences Zhengzhou UniversityZhengzhouHenan 450001China

Background The cyclic nucleotide-gated channel(CNGC)gene family plays a significant role in the uptake of both essential and toxic cations,and has a role in enhancing tolerance to various forms of abiotic stresses as well as the modulation of the heavy metal toxicity to plant through the absorption of heavy *** A complete genome-wide identification and functional characterization of the cotton CNGC genes was carried out,in which 55,28,and 29 CNGC genes were identified in Gossypium hirsutum,***,and ***,*** protein encoded by the CNGC genes exhibited GRAVY value below zero,indicating their hydrophilic *** genes were unevenly distributed in 19 out of 26 chromosomes,in which the highest density were observed on Ah05,with 8 *** gene coverage was observed among the diploid cotton species,with CNGC genes mapped on all A chromosomes and on 11 out of 13 of D *** majority of CNGC proteins were localized in the endoplasmic reticulum,nucleus,and plasma *** expression analysis revealed the up-regulation of Gh_A01G0520(CNGC4)and Gh_D13G1974(CNGC5)across various forms of abiotic ***,down-regulation of Gh_A01G0520(CNGC4)and Gh_D13G1974(CNGC5)in CNGCs silenced plants caused the significantly reduced ability to tolerate drought and salt *** CNGCs silenced plants were recorded to have significantly low content of antioxidants but relatively higher content of oxidant,including MDA and H_(2)O_(2).Furthermore,SPAD,CMS(cell membrane stability),ELWL(excised leaf water loss),SDW(shoot dry matter weight),and RDW(root dry matter weight)were all lower in CNGCs silenced plants compared with the wild type *** Significant reduction in antioxidant content and negative effects of physiological and morphological characters in CNGCs silenced plants has revealed the novel role of CNGC genes in enhancing cell integrity under abiotic stress *** results provide vital information

关键词： Cyclic nucleotide-gated channel Abiotic stress Differential expression VIGS-plants Chromosome Tetraploid cotton

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Genetic map construction and functional characterization of genes within the segregation distortion regions(SDRs)in the F_(2:3) populations derived from wild cotton species of the D genome

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Journal of Cotton Research 2020年第4期3卷 278-296页

作者： kirungu joy nyangasi MAGWANGA Richard Odongo SHIRAKU Margaret Linyerera LU Pu MEHARI Teame Gereziher XU Yuanchao HOU Yuqing AGONG Stephen Gaya ZHOU Yun CAI Xiaoyan ZHOU Zhongli WANG Kunbo LIU Fang State Key Laboratory of Cotton Biology/Institute of Cotton Research Chinese Academy of Agricultural ScienceAnyang 455000HenanChina School of Biological PhysicalMathematics and Actuarial Sciences(SBPMAS)Jaramogi Oginga Odinga University of Science and Technology(JOOUST)210-40601BondoKenya School of Life Science Henan University/State Key Laboratory of Cotton Biology/Henan Key Laboratory of Plant Stress BiologyKeifang 475004HenanChina School of Agricultural Sciences Zhengzhou UniversityZhengzhou 450001HenanChina.

Background:Segregation distortion(SD)is a common phenomenon among stable or segregating populations,and the principle behind it still puzzles many *** F2:3 progenies developed from the wild cotton species of the D genomes were used to investigate the possible plant transcription factors within the segregation distortion regions(SDRs).A consensus map was developed between two maps from the four D genomes,map A derived from F2:3 progenies of Gossypium klotzschianum and *** while Map B from *** and *** F2:3 *** each map,188 individual plants were ***:The consensus linkage map had 1492 markers across the 13 linkage groups with a map size of 1467.445 cM and an average marker distance of 1.0370 *** D502 had the highest percentage of SD with 58.6%,followed by Chromosome D507 with 47.9%.Six thousand and thirty-eight genes were mined within the SDRs on chromosome D502 and D507 of the consensus *** chromosome D502 and D507,2308 and 3730 genes were mined,respectively,and were found to belong to 1117 gourp out of which 622 groups were common across the two ***,genes within the top 9 groups related to plant resistance genes(R genes),whereas 188 genes encoding protein kinase domain(PF00069)comprised the largest *** analysis of the dominant gene group revealed that 287 miRNAs were found to target various genes,such as the gra-miR398,gramiR5207,miR164a,miR164b,miR164c among others,which have been found to target top-ranked stress-responsive transcription factors such as NAC ***,some of the stress-responsive cis-regulatory elements were also ***,RNA profiling of the genes from the dominant family showed that higher numbers of genes were highly upregulated under salt and osmotic stress conditions,and also they were highly expressed at different stages of fiber ***:The results indicated the critical role of the SDRs in the evolution of the k

关键词： Genetic map Segregation distortion region Cis-regulatory elements Genes miRNA

二倍体D基因组戴维逊氏棉×克劳茨基棉遗传图谱的构建

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二倍体D基因组戴维逊氏棉×克劳茨基棉遗传图谱的构建