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Intra-individual polymorphism in chloroplasts from NGS data: where does it come from and how to handle it?

Molecular ecology resources - 1 Mar 2016

Scarcelli N, Mariac C, Couvreur T L P, Faye A, Richard D, Sabot F, Berthouly-Salazar C, Vigouroux Y

Abstract excerpt

Next-generation sequencing allows access to a large quantity of genomic data. In plants, several studies used whole chloroplast genome sequences for inferring phylogeography or phylogeny. Even though the chloroplast is a haploid organelle, NGS plastome data identified a nonnegligible number of intra-individual polymorphic SNPs. Such observations could have several causes such as sequencing errors, the presence of...

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PMID: 26388536
DOI: 10.1111/1755-0998.12462

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PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-08.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

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