Project description:Through genome-wide comparative transcriptome analysis of 63 samples, the current study identified nine key genes and pathways associated with biological process of yield heterosis in upland cotton. Our results and data resources provide novel insights and will be useful for dissecting the molecular mechanism of yield heterosis in cotton.
Project description:Sea-island cotton (Gossypium barbadense L.) has superior fiber quality properties such as length, fineness and strength, while Upland cotton (Gossypium hirsutum L.) is characterized by high yield. To reveal features of Upland cotton and Sea-island cotton fiber cells, differential genes expression profiles during fiber cell elongation and in secondary wall deposits were established using cDNA microarray technology. This research provides a valuable genomic resource to deepen our understanding of the molecular mechanisms of cotton fiber development, and may ultimately lead to improvements in cotton fiber quality and yield.
Project description:Purpose: found out the regulated genes of nulliplex-branch and its forming molecular mechanism Methods: shoot apical mRNA and miRNA in two nulliplex branch and two normal branch cotton of three development stages were generated by deep sequencing, in triplicate, using Illumina HiSeq 2000. Results: we found 3 825 and 353 specific stage differnent expressed genes in pre-budding stage of island cotton and upland cotton, respectively. In miRNA, we found 16 and 18 specific stage differnent expressed miRNA in pre-budding stageof island cotton and upland cotton, respectively. Conclusions: Our study represents the genes and miRNA control development of lateral branch and regulate flowering time at same times.
Project description:Transcriptome and metabolome profiling reveals key pathways and metabolites involved in defense response of upland cotton against Verticillium dahliae
Project description:High temperature (HT) stress is a major environmental stress that limits cotton growth, metabolism, and yield worldwide. The identification and characterization of thermotolerance is restricted by the plant growth environment and growth stage. In this study, four genotypes of upland cotton (Gossypium hirsutum L.) with known field thermotolerance were evaluated under normal and HTs at the seedlings stage in a growth cabinet with 11 physiological, biochemical, and phenotypic assays. Consistent with previous field observations, the thermotolerance could be identified by genotype differences at the seedling stage under HT in a growth cabinet. Comparative transcriptome analysis was performed on seedlings of two contrasting cotton genotypes after 4 and 8 hours of HT exposure. Gene ontology analysis combined with BLAST annotations revealed a large number of HT-induced differentially expressed genes (4,698) that either exhibited higher expression levels in the heat-tolerant genotype (Nan Dan Ba Di Da Hua) compared with the heat-sensitive genotype (Earlistaple 7), or were differentially expressed only in Nan Dan Ba Di Da Hua. These genes encoded mainly protein kinases, transcription factors, and heat shock proteins, which were considered to play key roles in thermotolerance in upland cotton. Two heat shock transcription factor genes (homologs of AtHsfA3, AtHsfC1) and AP2/EREBP family genes (homologs of AtERF20, AtERF026, AtERF053, and AtERF113) were identified as possible key regulators of thermotolerance in cotton. Some of the differentially expressed genes were validated by quantitative real-time PCR analysis. Our findings provide candidate genes that could be used to improve thermotolerance in cotton cultivars.
Project description:Next-generation sequencing (NGS) was used to analysis the expression profiling of cotton seedlings under TOR inhibition by AZD. TOR inhibition significantly altered the expression levels of anabolic and catabolic processes related genes, photosynthesis and phytohormone signaling pathways related genes. Expression profiling analysis reveals that TOR is a key player in cotton seedlings growth.
Project description:As an initial step to explore the cotton (Gossypium hirsutum L.) root transcriptional response to the southern Root-Knot Nematode (RKN) Meloidogyne incognita infestation, conventional heirloom G. hirsutum (Gh) cultivars [susceptible Acala SJ-2 (SJ2), moderately resistant Upland Wild Mexico Jack Jones (WMJJ), and resistant Acala NemX] that have been shown to be useful as an informative genetic model for detecting and introgressing RKN resistance genes into commercial Upland cotton were used to enlighten the molecular mechanisms and gene expression of RKN resistance. Using the next generation sequencing (NGS) Illumina MiSeq and HiSeq, we performed RNA-seq profiling in roots with disease progression of 10 days and collected from 23 days old plants of SJ2, WMJJ, and NemX. With three biological replicates of each treatment from each cultivar, plants were subjected to RKN-infestation and non-infested control developing a total of 18 RNA-seq libraries
Project description:RNAs from the upland cotton 9-DPA fibers were compared to the 9-DPA fiber-detached ovule. RNAs from the upland cotton 9-DPA fibers were compared to the 9-DPA fiber-detached ovule.
Project description:Purpose: found out the regulated genes of nulliplex-branch and its forming molecular mechanism Methods: shoot apical mRNA and miRNA in two nulliplex branch and two normal branch cotton of three development stages were generated by deep sequencing, in triplicate, using Illumina HiSeq 2000. Results: we found 3 825 and 353 specific stage differnent expressed genes in pre-budding stage of island cotton and upland cotton, respectively. In miRNA, we found 16 and 18 specific stage differnent expressed miRNA in pre-budding stageof island cotton and upland cotton, respectively. Conclusions: Our study represents the genes and miRNA control development of lateral branch and regulate flowering time at same times. Shoot apical mRNA and miRNA of normal branch cotton and nulliplex branch botton were generated by deep sequencing, in triplicate, using Illumina HiSeq 2000.
