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Generation and Characterisation of a Reference Transcriptome for Lentil (Lens culinaris Medik.)

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posted on 2023-02-09, 04:56 authored by S Sudheesh, P Verma, JW Forster, Noel CoganNoel Cogan, S Kaur
RNA-Seq using second-generation sequencing technologies permits generation of a reference unigene set for a given species, in the absence of a well-annotated genome sequence, supporting functional genomics studies, gene characterisation and detailed expression analysis for specific morphophysiological or environmental stress response traits. A reference unigene set for lentil has been developed, consisting of 58,986 contigs and scaffolds with an N50 length of 1719 bp. Comparison to gene complements from related species, reference protein databases, previously published lentil transcriptomes and a draft genome sequence validated the current dataset in terms of degree of completeness and utility. A large proportion (98%) of unigenes were expressed in more than one tissue, at varying levels. Candidate genes associated with mechanisms of tolerance to both boron toxicity and time of flowering were identified, which can eventually be used for the development of gene-based markers. This study has provided a comprehensive, assembled and annotated reference gene set for lentil that can be used for multiple applications, permitting identification of genes for pathway-specific expression analysis, genetic modification approaches, development of resources for genotypic analysis, and assistance in the annotation of a future lentil genome sequence.

Funding

This work was supported by funding from the Victorian Department of Economic Development, Jobs, Transport and Resources, Australia.

History

Publication Date

2016-11-12

Journal

International Journal of Molecular Sciences

Volume

17

Issue

11

Article Number

1887

Pagination

19p.

Publisher

MDPI

ISSN

1422-0067

Rights Statement

© 2016 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).

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