Two distinct plastid genome configurations and unprecedented intraspecies length variation in the accD coding region in Medicago truncatula

Gurdonand Csanad, Pal Maliga

Research output: Contribution to journalArticle

29 Citations (Scopus)

Abstract

We fully sequenced four and partially sequenced six additional plastid genomes of the model legume Medicago truncatula. Three accessions, Jemalong 2HA, Borung and Paraggio, belong to ssp. truncatula, and R108 to ssp. tricycla. We report here that the R108 ptDNA has a ∼45-kb inversion compared with the ptDNA in ssp. truncatula, mediated by a short, imperfect repeat. DNA gel blot analyses of seven additional ssp. tricycla accessions detected only one of the two alternative genome arrangements, represented by three and four accessions each. Furthermore, we found a variable number of repeats in the essential accD and ycf1 coding regions. The repeats within accD are recombinationally active, yielding variable-length insertions and deletions in the central part of the coding region. The length of ACCD was distinct in each of the 10 sequenced ecotypes, ranging between 650 and 796 amino acids. The repeats in the ycf1 coding region are also recombinationally active, yielding short indels in 10 regions of the reading frames. Thus, the plastid genome variability we report here could be linked to repeat-mediated genome rearrangements. However, the rate of recombination was sufficiently low, so that no heterogeneity of ptDNA could be observed in populations maintained by single-seed descent.

Original languageEnglish (US)
Pages (from-to)417-427
Number of pages11
JournalDNA Research
Volume21
Issue number4
DOIs
StatePublished - Jan 1 2014

Fingerprint

Plastid Genomes
Medicago truncatula
Genome
Ecotype
Reading Frames
Fabaceae
Genetic Recombination
Seeds
Gels
Amino Acids
DNA
Population

All Science Journal Classification (ASJC) codes

  • Genetics
  • Molecular Biology

Keywords

  • Medicago truncatula
  • Plastid genome
  • accD
  • ptDNA
  • ycf1

Cite this

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abstract = "We fully sequenced four and partially sequenced six additional plastid genomes of the model legume Medicago truncatula. Three accessions, Jemalong 2HA, Borung and Paraggio, belong to ssp. truncatula, and R108 to ssp. tricycla. We report here that the R108 ptDNA has a ∼45-kb inversion compared with the ptDNA in ssp. truncatula, mediated by a short, imperfect repeat. DNA gel blot analyses of seven additional ssp. tricycla accessions detected only one of the two alternative genome arrangements, represented by three and four accessions each. Furthermore, we found a variable number of repeats in the essential accD and ycf1 coding regions. The repeats within accD are recombinationally active, yielding variable-length insertions and deletions in the central part of the coding region. The length of ACCD was distinct in each of the 10 sequenced ecotypes, ranging between 650 and 796 amino acids. The repeats in the ycf1 coding region are also recombinationally active, yielding short indels in 10 regions of the reading frames. Thus, the plastid genome variability we report here could be linked to repeat-mediated genome rearrangements. However, the rate of recombination was sufficiently low, so that no heterogeneity of ptDNA could be observed in populations maintained by single-seed descent.",
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Two distinct plastid genome configurations and unprecedented intraspecies length variation in the accD coding region in Medicago truncatula. / Csanad, Gurdonand; Maliga, Pal.

In: DNA Research, Vol. 21, No. 4, 01.01.2014, p. 417-427.

Research output: Contribution to journalArticle

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