Phylogenetic and comparative analyses of Hydnora abyssinica plastomes provide evidence for hidden diversity within Hydnoraceae.
Heterotrophy
Kenya
Monophyly
Piperales
Plastome condensation
Taita hills
Journal
BMC ecology and evolution
ISSN: 2730-7182
Titre abrégé: BMC Ecol Evol
Pays: England
ID NLM: 101775613
Informations de publication
Date de publication:
18 07 2023
18 07 2023
Historique:
received:
22
09
2022
accepted:
06
07
2023
medline:
21
7
2023
pubmed:
19
7
2023
entrez:
18
7
2023
Statut:
epublish
Résumé
To date, plastid genomes have been published for all but two holoparasitic angiosperm families. However, only a single or a few plastomes represent most of these families. Of the approximately 40 genera of holoparasitic angiosperms, a complete plastid genome sequence is available for only about half. In addition, less than 15 species are currently represented with more than one published plastid genome, most of which belong to the Orobanchaceae. Therefore, a significant portion of the holoparasitic plant plastome diversity remains unexplored. This limited information could hinder potential evolutionary pattern recognition as well as the exploration of inter- and intra-species plastid genome diversity in the most extreme holoparasitic angiosperms. Here, we report the first plastomes of Kenyan Hydnora abyssinica accessions. The plastomes have a typical quadripartite structure and encode 24 unique genes. Phylogenetic tree reconstruction recovers the Kenyan accessions as monophyletic and together in a clade with the Namibian H. abyssinica accession and the recently published H. arabica from Oman. Hydnora abyssinica as a whole however is recovered as non-monophyletic, with H. arabica nested within. This result is supported by distinct structural plastome synapomorphies as well as pairwise distance estimates that reveal hidden diversity within the Hydnora species in Africa. We propose to increase efforts to sample widespread holoparasitic species for their plastid genomes, as is the case with H. abyssinica, which is widely distributed in Africa. Morphological reinvestigation and further molecular data are needed to fully investigate the diversity of H. abyssinica along the entire range of distribution, as well as the diversity of currently synonymized taxa.
Sections du résumé
BACKGROUND
To date, plastid genomes have been published for all but two holoparasitic angiosperm families. However, only a single or a few plastomes represent most of these families. Of the approximately 40 genera of holoparasitic angiosperms, a complete plastid genome sequence is available for only about half. In addition, less than 15 species are currently represented with more than one published plastid genome, most of which belong to the Orobanchaceae. Therefore, a significant portion of the holoparasitic plant plastome diversity remains unexplored. This limited information could hinder potential evolutionary pattern recognition as well as the exploration of inter- and intra-species plastid genome diversity in the most extreme holoparasitic angiosperms.
RESULTS
Here, we report the first plastomes of Kenyan Hydnora abyssinica accessions. The plastomes have a typical quadripartite structure and encode 24 unique genes. Phylogenetic tree reconstruction recovers the Kenyan accessions as monophyletic and together in a clade with the Namibian H. abyssinica accession and the recently published H. arabica from Oman. Hydnora abyssinica as a whole however is recovered as non-monophyletic, with H. arabica nested within. This result is supported by distinct structural plastome synapomorphies as well as pairwise distance estimates that reveal hidden diversity within the Hydnora species in Africa.
CONCLUSION
We propose to increase efforts to sample widespread holoparasitic species for their plastid genomes, as is the case with H. abyssinica, which is widely distributed in Africa. Morphological reinvestigation and further molecular data are needed to fully investigate the diversity of H. abyssinica along the entire range of distribution, as well as the diversity of currently synonymized taxa.
Identifiants
pubmed: 37464315
doi: 10.1186/s12862-023-02142-w
pii: 10.1186/s12862-023-02142-w
pmc: PMC10353213
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
34Informations de copyright
© 2023. The Author(s).
Références
Plant Physiol. 1972 Jun;49(6):873-80
pubmed: 16658075
Nucleic Acids Res. 2002 Jul 15;30(14):3059-66
pubmed: 12136088
Am J Bot. 2012 Sep;99(9):1513-23
pubmed: 22935364
Nucleic Acids Res. 1994 Jul 11;22(13):2437-46
pubmed: 8041603
Mol Biol Evol. 2014 Apr;31(4):793-803
pubmed: 24458431
New Phytol. 2017 Apr;214(1):48-55
pubmed: 28067952
Plants (Basel). 2021 Mar 05;10(3):
pubmed: 33807757
Genome Biol Evol. 2015 Dec 12;8(1):189-201
pubmed: 26660355
Biotechniques. 2000 Jun;28(6):1102, 1104
pubmed: 10868275
Nucleic Acids Res. 1986 Jul 11;14(13):5125-43
pubmed: 3526280
Plants (Basel). 2020 Mar 01;9(3):
pubmed: 32121567
Mol Biol Evol. 2017 Mar 1;34(3):772-773
pubmed: 28013191
Front Plant Sci. 2021 Apr 12;12:642598
pubmed: 33912209
Mol Biol Evol. 2013 Apr;30(4):772-80
pubmed: 23329690
Bioinformatics. 2014 Nov 15;30(22):3276-8
pubmed: 25095880
Genome Biol Evol. 2016 Jan 06;8(2):345-63
pubmed: 26739167
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
BMC Evol Biol. 2014 Apr 17;14:82
pubmed: 24742000
Curr Biol. 2021 Mar 8;31(5):1002-1011.e9
pubmed: 33485466
BMC Bioinformatics. 2010 Jan 05;11:7
pubmed: 20051126
Mol Biotechnol. 2011 Oct;49(2):116-28
pubmed: 21308422
PLoS One. 2013 Nov 12;8(11):e79204
pubmed: 24265760
Mol Phylogenet Evol. 2019 Jun;135:193-202
pubmed: 30914393
Plant Cell. 2013 Oct;25(10):3711-25
pubmed: 24143802
Am J Bot. 2007 Sep;94(9):1439-49
pubmed: 21636511
Am J Bot. 2002 Nov;89(11):1809-17
pubmed: 21665609
Proc Natl Acad Sci U S A. 2019 Jan 15;116(3):934-943
pubmed: 30598433
J Mol Biol. 1966 Aug;19(2):548-55
pubmed: 5969078
Genome Biol Evol. 2022 May 31;14(6):
pubmed: 35660863
Nucleic Acids Res. 2019 Jul 2;47(W1):W59-W64
pubmed: 30949694
Nat Struct Mol Biol. 2008 Feb;15(2):192-8
pubmed: 18193063
Proc Natl Acad Sci U S A. 2016 Aug 9;113(32):9045-50
pubmed: 27450087
Ann Bot. 2009 Oct;104(5):823-32
pubmed: 19584128
BMC Evol Biol. 2006 Oct 04;6:77
pubmed: 17020608