Transcript profiling of genes expressed during fibre development in diploid cotton (Gossypium arboreum L.)

Cotton fibre is a single cell and it is one of the best platforms for unraveling the genes express during various stages of fibre development. There are reports devoted to comparative transcriptome study on fiber cell initiation and elongation in tetraploid cultivated cotton. However, in the present...

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Published in:	BMC genomics Vol. 18; no. 1; p. 675
Main Authors:	Hande, Atul S, Katageri, Ishwarappa S, Jadhav, Mangesh P, Adiger, Sateesh, Gamanagatti, Savita, Padmalatha, Kethireddy Venkata, Dhandapani, Gurusamy, Kanakachari, Mogilicherla, Kumar, Polumetla Ananda, Reddy, Vanga Siva
Format:	Journal Article
Language:	English
Published:	England BioMed Central Ltd 31-08-2017 BioMed Central BMC
Subjects:	Arabinogalactan Biosynthesis Cell Wall - metabolism Cell walls Cotton Cotton (Plant) Cotton Fiber Cotton fibers Data analysis Developmental stages Diploid cotton Diploids Diploidy Down-regulation Elongation Energy metabolism Energy Metabolism - genetics Fatty acids Fatty Acids - metabolism Fibers Gene expression Gene Expression Profiling Gene regulation Genes Genetic aspects Genomes Genomics Gossypium - cytology Gossypium - genetics Gossypium - growth & development Gossypium - metabolism Gossypium arboreum Growth Kinases Leucine MAP kinase Metabolic pathways Metabolism Microarray Molecular Sequence Annotation Mutants Observations Plant development Protein kinase Proteins qRT PCR RNA, Messenger - genetics RNA, Messenger - metabolism Scanning electron microscopy Signal transduction Signal Transduction - genetics Signaling Software Transcription factors Transcription Factors - genetics Tubulin United States > US Diploid cotton Transcription factors Microarray qRT PCR
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Summary:	Cotton fibre is a single cell and it is one of the best platforms for unraveling the genes express during various stages of fibre development. There are reports devoted to comparative transcriptome study on fiber cell initiation and elongation in tetraploid cultivated cotton. However, in the present investigation, comparative transcriptome study was made in diploid cultivated cotton using isogenic fuzzy-lintless (Fl) and normal fuzzy linted (FL) lines belong to Gossypium arboreum, diploid species at two stages, 0 and 10 dpa (days post anthesis), using Affymetrix cotton GeneChip genome array. Scanning electron microscopy (SEM) analysis uncovered the occurrence of few fibre cell initials in the Fl line as compared to many in Normal FL at -2 and 0 dpa. However, at 10 dpa there were no fibre cells found elongated in Fl but many elongated cells were found in FL line. Up-regulation of transcription factors, AP2-EREBP, C2H2, C3H, HB and WRKY was observed at 0 dpa whereas in 10 dpa transcription factors, AP2-EREBP, AUX/IAA, bHLH, C2H2, C3H, HB, MYB, NAC, Orphans, PLATZ and WRKY were found down regulated in Fl line. These transcription factors were mainly involved in metabolic pathways such as phytohormone signaling, energy metabolism of cell, fatty acid metabolism, secondary metabolism and other signaling pathways and are related directly or indirectly in fiber development. Quantitative real-time PCR was performed to check fold up or down-regulation of these genes and transcription factors (TFs) down regulated in mutants as compared to normal at 0 and 10 dpa. This study elucidates that the up-regulation of transcription factors like AP2-EREBP, C2H2, C3H, HB, WRKY and phytohormone signaling genes at 0 dpa and their down-regulation at the 10 dpa might have constrain the fibre elongation in fuzzy-lintless line. Along with this the down-regulation of genes involved in synthesis of VLCFA chain, transcripts necessary for energy and cell wall metabolism, EXPANSINs, arabinogalactan proteins (AGPs), tubulin might also be the probable reason for reduced growth of fibres in the Fl. Plant receptor-like kinases (RLKs), Leucine Rich Repeats) LRR- family protein and signal transduction coding for mitogen-activated protein kinase (MAPK) cascade, have been engaged in coordination of cell elongation and SCW biosynthesis, down-regulation of these might loss the function leads to reduced fibre growth.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	1471-2164 1471-2164
DOI:	10.1186/s12864-017-4066-y