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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Plant Sci. | doi: 10.3389/fpls.2019.01343

Mitotypes based on structural variation of mitochondrial genomes imply relationships with morphological phenotypes and cytoplasmic male sterility in peppers

 Yeong Deuk Jo1*,  Hea-Young Lee2, Na-Young Ro3, Sang Hoon Kim1, Jin-Beak Kim1,  Byoung-Cheorl Kang2 and Si-Yong Kang1*
  • 1Advanced Radiation Technology Institute (ARTI), South Korea
  • 2Seoul National University, South Korea
  • 3National Academy of Agricultural Science (South Korea), South Korea

Plant mitochondrial genomes characteristically contain extensive structural variation that can be used to define and classify cytoplasm types. We developed markers based on structural variation in the mitochondrial genomes of fertile and cytoplasmic male sterility (CMS) pepper lines and applied them to a panel of Capsicum accessions. We designed a total of 20 sequence characterized amplified region (SCAR) markers based on DNA rearrangement junctions or cytoplasm-specific segments that did not show high similarity to any nuclear mitochondrial DNA segments. We used those markers to classify the mitotypes of 96 C. annuum accessions into 15 groups. Precise genotyping of other Capsicum species (C. frutescens, C. chinense, and C. baccatum) was hampered because of various stoichiometric levels of marker amplicons. We developed a multiplex PCR system based on four of the markers that efficiently classified the C. annuum accessions into five mitotype groups. Close relationships between specific mitotypes and morphological phenotypes implied that diversification or domestication of C. annuum germplasm might have been accompanied by structural rearrangements of mitochondrial DNA or the selection of germplasms with specific mitotypes. Meanwhile, CMS lines shared the same amplification profile of markers with another mitotype. Further analysis using mitochondrial DNA (mtDNA) markers based on single nucleotide polymorphisms (SNPs) or insertions and deletions (InDels), and CMS-specific open reading frames (orfs) provided new information about the origin of the CMS-specific mitotype and evaluation of candidates for CMS-associated genes, respectively.

Keywords: Mitotype, cytoplasmic male sterility, pepper, structural variation, Domestication

Received: 29 Jan 2019; Accepted: 27 Sep 2019.

Copyright: © 2019 Jo, Lee, Ro, Kim, Kim, Kang and Kang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence:
Dr. Yeong Deuk Jo, Advanced Radiation Technology Institute (ARTI), Jeongeup, 26212, North Jeolla, South Korea, unifaith@hanmail.net
Dr. Si-Yong Kang, Advanced Radiation Technology Institute (ARTI), Jeongeup, 26212, North Jeolla, South Korea, sykang@kaeri.re.kr