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Comparative transcriptome analysis, unfolding the pathways regulating the seed-size trait in cultivated lentil (Lens culinaris Medik.).
Dutta, Haragopal; Mishra, Gyan P; Aski, Muraleedhar S; Bosamia, Tejas C; Mishra, Dwijesh C; Bhati, Jyotika; Sinha, Subodh Kumar; Vijay, Dunna; C T, Manjunath Prasad; Das, Shouvik; Pawar, Prashant Anupama-Mohan; Kumar, Atul; Tripathi, Kuldeep; Kumar, Ranjeet Ranjan; Yadava, Devendra Kumar; Kumar, Shiv; Dikshit, Harsh Kumar.
Afiliação
  • Dutta H; Division of Genetics, Indian Agricultural Research Institute, New Delhi, India.
  • Mishra GP; Division of Genetics, Indian Agricultural Research Institute, New Delhi, India.
  • Aski MS; Division of Genetics, Indian Agricultural Research Institute, New Delhi, India.
  • Bosamia TC; Plant Omics Division, Central Salt and Marine Chemicals Research Institute, Bhavnagar, India.
  • Mishra DC; Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi, India.
  • Bhati J; Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi, India.
  • Sinha SK; ICAR-National Institute for Plant Biotechnology, New Delhi, India.
  • Vijay D; Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India.
  • C T MP; Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India.
  • Das S; Laboratory of Plant Cell Wall Biology, Regional Centre for Biotechnology, Faridabad, India.
  • Pawar PA; Laboratory of Plant Cell Wall Biology, Regional Centre for Biotechnology, Faridabad, India.
  • Kumar A; Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, India.
  • Tripathi K; Germplasm Evaluation Division, National Bureau of Plant Genetic Resources, New Delhi, India.
  • Kumar RR; Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, India.
  • Yadava DK; Division of Crop Science, Indian Council of Agricultural Research, New Delhi, India.
  • Kumar S; South Asia and China Program, International Center for Agricultural Research in the Dry Areas, NASC Complex, New Delhi, India.
  • Dikshit HK; Division of Genetics, Indian Agricultural Research Institute, New Delhi, India.
Front Genet ; 13: 942079, 2022.
Article em En | MEDLINE | ID: mdl-36035144
ABSTRACT
Market class, cooking time, quality, and milled grain yield are largely influenced by the seed size and shape of the lentil (Lens culinaris Medik.); thus, they are considered to be important quality traits. To unfold the pathways regulating seed size in lentils, a transcriptomic approach was performed using large-seeded (L4602) and small-seeded (L830) genotypes. The study has generated nearly 375 million high-quality reads, of which 98.70% were properly aligned to the reference genome. Among biological replicates, very high similarity in fragments per kilobase of exon per million mapped fragments values (R > 0.9) showed the consistency of RNA-seq results. Various differentially expressed genes associated mainly with the hormone signaling and cell division pathways, transcription factors, kinases, etc. were identified as having a role in cell expansion and seed growth. A total of 106,996 unigenes were used for differential expression (DE) analysis. String analysis identified various modules having certain key proteins like Ser/Thr protein kinase, seed storage protein, DNA-binding protein, microtubule-associated protein, etc. In addition, some growth and cell division-related micro-RNAs like miR3457 (cell wall formation), miR1440 (cell proliferation and cell cycles), and miR1533 (biosynthesis of plant hormones) were identified as having a role in seed size determination. Using RNA-seq data, 5254 EST-SSR primers were generated as a source for future studies aiming for the identification of linked markers. In silico validation using Genevestigator® was done for the Ser/Thr protein kinase, ethylene response factor, and Myb transcription factor genes. It is of interest that the xyloglucan endotransglucosylase gene was found differentially regulated, suggesting their role during seed development; however, at maturity, no significant differences were recorded for various cell wall parameters including cellulose, lignin, and xylose content. This is the first report on lentils that has unfolded the key seed size regulating pathways and unveiled a theoretical way for the development of lentil genotypes having customized seed sizes.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Tipo de estudo: Prognostic_studies Idioma: En Ano de publicação: 2022 Tipo de documento: Article

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Tipo de estudo: Prognostic_studies Idioma: En Ano de publicação: 2022 Tipo de documento: Article