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棉花学报 2008年第S1期20卷 85-页

作者： saha sukumar jen.in. john.e n USDA-ARS Crop Science Research Laboratory Mississippi State

CSB14Sh,which is isogenic for its recurrent parent TM-1 except for chromosome 14 short arm,was crossed with TM-1,and the F2 population was produced.A total of 3800 SSR primer pairs covering the whole genome were used ... 详细信息

关键词： QTLs Constructing Molecular Marker Linkage Maps of Chromosome 14Sh and 22Sh and QTL Mapping for Major Traits by Use of Substitution Lines of Gossypium hirsutum L

Characterization of a novel RInG-Type Ubiquitin e3 Ligase GhRInG2 Differentially expressed in Cotton Fiber

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American Journal of Plant Sciences 2014年第21期5卷 3364-3379页

作者： Shiva Soma Chuan-Yu Hsu sukumar saha john.e n. jen.in. Din-Pow Ma Department of Biochemistry Molecular Biology Entomology and Plant Pa-thology Mississippi State University Mississippi State USA Institute for Genomics Biocomputing & Biotechnology Mississippi State Uni-versity Mississippi State USA Crop Science Research Laboratory Agricultural Research Service United States Department of Agriculture Mississippi State USA Department of Plant and Soil Sciences Mississippi State University Mississippi State USA

The ubiquitin-proteasome proteolysis pathway is responsible for the degradation of abnormal and short-lived proteins to regulate many important biochemical activities in eukaryotes. By employing affymetrix microarray analysis, we have identified a novel ubiquitin ligase e3 gene GhRInG2 that is differentially expressed between two Gossypium hirsutum lines-Texas Marker-1 (TM-1) and Chromosome Substitution Line CS-B25. The CS-B25 line has chromosome 25 from G. barbadense substituted into TM-1. The complete nucleotide sequences of GhRInG2 along with its 5’-flanking region were obtained by genomic walking. GhRInG2 was highly expressed in elongating fiber, and GUS expression directed by the GhRInG2 promoter was found in hypocotyls and young stems of transgenic Arabidopsis plants. Using a yeast two-hybrid assay GhRInG2 was found to interact with a PROTODeRMAL FACTOR1 (GhPDF1) protein. GhPDF1 was expressed preferentially in immature ovules and fiber initials, and the GhPDF1 gene had been suggested to play a role in cell fate determination and fiber development. Pull down and plasmid swap assays further confirmed the interaction between GhRInG2 and GhPDF1. The expression and protein interaction data indicate that GhRInG2 may be involved in the turnover of GhPDF1 and participation in the transition from initiation to elongation stages during fiber development. Our data strongly suggest that the ubiquitin-proteasome pathway may regulate cotton fiber growth and development. The nucleotide sequence data of GhRInG2 in this article have been submitted to the Gen Bank nucleotide Sequence Data Bases under the accession number BankIt 1,742,008 SeqKM 108,000.

关键词： Cotton Fiber Gossypium hirsutum G. barbadense RInG-Type Ubiquitin Ligase Ubiquitination

Chromosome Substitution Lines:Useful Genomic Resources in Cotton

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棉花学报 2008年第S1期20卷 111-页

作者： saha sukumar jen.in. john.e n MCARTY Jack C STeLLY David USDA-ARS Crop Science Research Laboratory P.O.Box 5367 Mississippi State Dept.Soil & Crop Sciences TAMU College Station

The genus Gossypium is a very diverse one with about 50 ***,a very narrow germplasm base is presently being used for genetic improvement of Upland *** wild

关键词： CS

Identification of Differentially expressed Genes Associated with Cotton Fiber Development in a Chromosomal Substitution Line(CS-B22sh)

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棉花学报 2008年第S1期20卷 36-页

作者： SOLIMAn Khairy M BOLTOn James J saha sukumar jen.in. john.e n Alabama A&M University normal AL 35762 USDA/ARS Crop Science Laboratory Starkville

One of the impediments in the genetic improvement of cotton fiber is the paucity of information about genes associated with fiber *** of chromosome arm substitution line CS-

关键词： CS-B22sh Identification of Differentially expressed Genes Associated with Cotton Fiber Development in a Chromosomal Substitution Line line

Interspecific Chromosome Substitution Lines as Genetic Resources for Improvement,Trait Analysis and Genomic Inference

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棉花学报 2008年第S1期20卷 84-页

作者： RASKA Dwaine A saha sukumar jen.in. john.e n MCCARTY Jack C STeLLY David M Department of Soil and Crop Science Texas A&M University College Station USDA-ARS Crop Science Research Laboratory Mississippi State

The genetic base that cotton breeders commonly use to improve Upland cultivars is very *** AD-genome species Gossypium barbadense,***,and *** are part of

关键词： CS Interspecific Chromosome Substitution Lines as Genetic Resources for Improvement,Trait Analysis and Genomic Inference

Isolation, Identification and Characterization of Genes Differentially expressed between Pima and Upland Cotton Fibers

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棉花学报 2002年第S1期14卷 47-47页

作者： Khairy M.SOLIMAn Allan ZIPF sukumar saha Department of Plant and Soil Science Alabama A&M UniversityNormalALDepartment of Plant and Soil ScienceAlabama A&M UniversityNormalALUSDA/ARS/CSRLMississippi StateUSA

The demand for high strength fiber in rawcotton has increased because of the widespreaduse of high speed spinning technology in theyarn and textile *** ofcotton fiber quality through

关键词： Cotton cotton spinning probes genetics yielding developmental differentially homologous remaining

Transcriptome Analysis of Ten-DPA Fiber in an Upland Cotton (<i>Gossypium hirsutum</i>) Line with Improved Fiber Traits from Phytochrome A1 RnAi Plants

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American Journal of Plant Sciences 2017年第10期8卷 2530-2553页

作者： Qing Miao Peng Deng sukumar saha john.e n. jen.in. Chuan-Yu Hsu Ibrokhim Y. Abdurakhmonov Zabardast T. Buriev Alan Pepper Din-Pow Ma Department of Biochemistry Molecular Biology Entomology and Plant Pathology Mississippi State University Mississippi State MS USA Department of Pharmacology Weill Cornell Medical College New York NY USA USDA-ARS Crop Science Research Laboratory Mississippi State MS USA Institute for Genomics Biocomputing and Biotechnology Mississippi State University Mississippi State MS USA Center of Genomics and Bioinformatics Academy of Sciences of Uzbekistan Tashkent Uzbekistan Department of Biology Texas A & M University College Station TX USA

Silencing phytochrome A1 gene (PHYA1) by RnA interference in Upland cotton (Gossypium hirsutum L. cv. Coker 312) had generated PHYA1 RnAi lines with improved fiber quality (longer, stronger and finer fiber). To reveal molecular mechanisms that govern fiber development with positive fiber traits, a study of global gene expression profiling of 10-DPA fibers in a PHYA1 RnAi line and its parent Coker 312 was conducted by high-throughput RnA sequencing. A comparative analysis of transcriptomes between the two lines had identified 142 genes that were differentially expressed in the 10-DPA fiber of the RnAi line. Gene Ontology analysis showed that these differentially expressed genes were mainly involved in metabolic pathways, heterocyclic/organic cyclic compound binding and multiple enzyme activities, and cell structures which were reported to play important roles in fiber development. Twenty-eight KeGG pathways were mapped for the 142 genes, and the pathways related to glycolysis/gluconeogenesis and pyruvate metabolism were the most abundant and followed by cytochrome P450-involved pathways, suggesting that fiber improvement could be through the regulation of proteins involved in cytochrome P450 pathways. Genes encoding WRKY transcription factors, sucrose synthase, xyloglucan endotransglucosylase hydrolase, udp-glucuronate: xylan alpha-glucuronosyltransferase, and genes involved in lipid metabolism and ABA/brassinosteroid signal transduction pathways were found differentially expressed in the RnAi line. These genes have direct impacts on cotton fiber quality. The results of this study elucidate molecular signatures and possible mechanisms of fiber improvement in the background of PHYA1 RnAi in cotton and should help for future fine-tuning and programming of cotton fiber development.

关键词： Fiber Development Phytochrome A1 RnA Interference RnA-Seq Transcriptome

Transcriptome Analysis of Ten Days Post Anthesis elongating Fiber in the Upland Cotton (<i>Gossypium hirsutum</i>) Chromosome Substitution Line CS-B25

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American Journal of Plant Sciences 2018年第6期9卷 1334-1361页

作者： Chuan-Yu Hsu Mark A. Arick II Qing Miao sukumar saha john.e n. jen.in. Mirzakamol S. Ayubov Ibrokhim Y. Abdurakhmonov Daniel G. Peterson Din-Pow Ma Institute for Genomics Biocomputing & Biotechnology Mississippi State University Mississippi State MS USA Department of Biochemistry Molecular Biology Entomology and Plant Pathology Mississippi State University Mississippi State MS USA Department of Pharmacology Weill Cornell Medical College Cornell University New York NY USA USDA-ARS Crop Science Research Laboratory Mississippi State MS USA Center of Genomics and Bioinformatics Academy Sciences of Uzbekistan Tashkent Uzbekistan

A chromosome substitution line, CS-B25, was developed by the substitution of chromosome pair 25 of Gossypium hirsutum TM-1 with the homologous pair of chromosome 25 from G. barbadense, a double haploid Pima 3-79 line. CS-B25 has improved fiber traits compared to its parent TM-1. To explore the molecule mechanisms underlying improved fiber traits, deep sequencing of total RnA was used to compare gene expression in fibers of CS-B25 and TM-1 at 10 days post anthesis (10-DPA). A total of 1872 differentially expressed genes (DeGs) were detected between the two lines, with 1175 up-regulated and 697 down-regulated in CS-B25. Gene Ontology (GO) enrichment analysis of the expression data by Generally Applicable Gene-set enrichment (GAGe) and ReviGO indicated that the most prevalent Biological Process GO terms associated with DeGs included DnA-templated transcription, response to oxidative stress, and cellulose biosynthesis. enriched Molecular Function GO terms included structural constituents of cytoskeleton, peroxidase activity, cellulose synthase (UDP-forming) activity, and transcription regulatory region sequence-specific DnA binding factors. GAGe was also used to find enriched KeGG pathways, and the highly represented pathways were Biosynthesis of Amino Acids, Starch and Sucrose Metabolism, Phenylpropanoid Biosynthesis, Protein Processing in endoplasmic Reticulum, and Plant Hormone Signal Transduction. Many of the identified DeGs are involved in cytoskeleton and cell wall metabolism. The results of gene expression data have provided new insight into the molecular mechanisms of fiber development during the fiber elongation stage and would offer novel candidate genes that may be utilized in cotton fiber quality improvement.

关键词： Chromosome Substitution Lines Differentially expressed Genes Fiber Development Quantitative Real-Time PCR RnA Sequencing Upland Cotton

Chromosome Substitution Lines in Cotton Improvement

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棉花学报 2002年第S1期14卷 78-78页

作者： sukumar saha Dwaine A.RASKA Osman A.GUTIéRReZl john.e n.jen.in. Jack C.McCARTY Jr. Roy G.CAnTReLL Richard G.PeRCY David M.STeLLY USDA-ARS Crop Science Research LaboratoryMississippi StateMS 39762 Department of Soil&Crop Sciences Texas A&M UniversityCollege StationTexas 77843-2474 Department of Agronomy and Horticulture 30003Dept.3QNew Mexico State UniversityLas Cruces.NM 88003-8003 USDA-ARS Maricopa Agricultural CenterMacricopaAZ 85239USA

Presently cotton breeders are confronting seriouschallenges due to the extensive use of narrowgenetic base in Upland cotton,*** germplasm that incorporatesnew alleles must be developed to provideimproved genetic poten... 详细信息

关键词：棉花 disease resistance genetic potential Upland cotton