Extensive Losses of Photosynthesis Genes in the Plastome of a Mycoheterotrophic Orchid, Cyrtosia septentrionalis (Vanilloideae: Orchidaceae).
Cyrtosia septentrionalis
gene loss
gene relocation
inverted repeat contraction
mycoheterotrophy
plastome
Journal
Genome biology and evolution
ISSN: 1759-6653
Titre abrégé: Genome Biol Evol
Pays: England
ID NLM: 101509707
Informations de publication
Date de publication:
01 02 2019
01 02 2019
Historique:
accepted:
29
01
2019
pubmed:
5
2
2019
medline:
22
3
2019
entrez:
5
2
2019
Statut:
ppublish
Résumé
Cyrtosia septentrionalis is an achlorophyllous mycoheterotrophic orchid in the subfamily Vanilloideae (Orchidaceae). This article reports C. septentrionalis's complete plastome sequence and compare it with other orchid plastomes with a same mycoheterotrophic nutritional mode. The C. septentrionalis plastome has decreased to 96,859 bp in length, but it still maintains a quadripartite structure. The C. septentrionalis plastome contains 38 protein-coding genes, 25 tRNA genes, and four ribosomal RNA genes. Most genes related to photosynthesis have been lost, whereas the majority of housekeeping genes remain; this pattern corresponds to the end of stage 3 gene degradation. The inverted repeat regions of the C. septentrionalis plastome have decreased to 10,414 bp and mainly contain the gene ycf2. A block consisting of four rrn genes and rps7 and rps12 has shifted to a small single-copy region. As a result, the small single-copy region was found to be expanded, despite the loss of all ndh genes in the region. Three inversion mutations are required to explain the C. septentrionalis plastome's current gene order. The species is endangered, and these results have implications for its conservation.
Identifiants
pubmed: 30715335
pii: 5305890
doi: 10.1093/gbe/evz024
pmc: PMC6390903
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
565-571Informations de copyright
© The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.
Références
Syst Biol. 2008 Oct;57(5):758-71
pubmed: 18853362
Int J Mol Sci. 2018 Mar 02;19(3):
pubmed: 29498674
EMBO J. 1986 Sep;5(9):2043-2049
pubmed: 16453699
Plant Cell. 2013 Oct;25(10):3711-25
pubmed: 24143802
Proc Natl Acad Sci U S A. 2016 Aug 9;113(32):9045-50
pubmed: 27450087
PLoS One. 2009 Jun 19;4(6):e5982
pubmed: 19543388
Nat Commun. 2018 Apr 24;9(1):1615
pubmed: 29691383
Mol Phylogenet Evol. 2004 Jun;31(3):1157-80
pubmed: 15120407
Mitochondrial DNA B Resour. 2017 Sep 29;2(2):689-691
pubmed: 33473949
Genome Biol Evol. 2011;3:1296-303
pubmed: 21971517
Am J Bot. 2012 Sep;99(9):1513-23
pubmed: 22935364
Cell. 1982 Jun;29(2):537-50
pubmed: 6288261
PLoS One. 2010 Jun 25;5(6):e11147
pubmed: 20593022
Genome Biol Evol. 2017 Oct 1;9(10):2604-2614
pubmed: 28985306
Genome Biol Evol. 2015 Jan 28;7(4):1179-91
pubmed: 25635040
New Phytol. 2018 May;218(3):1192-1204
pubmed: 29502351
Plant Mol Biol. 2012 May;79(1-2):5-20
pubmed: 22442035
New Phytol. 2017 Apr;214(1):48-55
pubmed: 28067952
Bioinformatics. 2012 Jun 15;28(12):1647-9
pubmed: 22543367
Sci Rep. 2015 Mar 12;5:9040
pubmed: 25761566
Front Plant Sci. 2017 May 03;8:715
pubmed: 28515737
Curr Genet. 2007 Nov;52(5-6):267-74
pubmed: 17957369
Ann Bot. 2009 Aug;104(3):377-85
pubmed: 19251715
Bioinformatics. 1998;14(9):817-8
pubmed: 9918953
DNA Res. 2004 Aug 31;11(4):247-61
pubmed: 15500250
Mol Biol Evol. 2014 Dec;31(12):3095-112
pubmed: 25172958
Genome Biol Evol. 2016 Aug 03;8(7):2164-75
pubmed: 27412609
Genome Biol Evol. 2018 Jul 1;10(7):1657-1662
pubmed: 29850794
Nucleic Acids Res. 2016 Jul 8;44(W1):W54-7
pubmed: 27174935
Mitochondrial DNA B Resour. 2017 Oct 18;2(2):725-727
pubmed: 33473960
Mol Phylogenet Evol. 2010 Aug;56(2):784-95
pubmed: 20211743
Mol Biol Evol. 2011 Jul;28(7):2077-86
pubmed: 21289370
Nucleic Acids Res. 2004 Mar 19;32(5):1792-7
pubmed: 15034147