Idahoa and Subularia: Hidden polyploid origins of two enigmatic
genera of crucifers

J 2022

Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers

DOGAN, Mert, Terezie MALÍK MANDÁKOVÁ, Xinyi GUO a Martin LYSÁK

Základní údaje

Originální název

Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers

Autoři

DOGAN, Mert (792 Turecko, domácí), Terezie MALÍK MANDÁKOVÁ (203 Česká republika, domácí), Xinyi GUO (156 Čína, domácí) a Martin LYSÁK (203 Česká republika, garant, domácí)

Vydání

American Journal of Botany, St Louis, Botanical Soc Amer Inc, 2022, 0002-9122

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10611 Plant sciences, botany

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 3.000

Kód RIV

RIV/00216224:14740/22:00127509

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1002/ajb2.16042

UT WoS

000844517500001

Klíčová slova anglicky

Brassicaceae; CES clade; Cruciferae; Hyb-Seq; Lineage V; mesopolyploidy; plastome phylogeny; repeatome; Subularieae; whole-genome duplication

Štítky

CF GEN, CF PLANT, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 15. 10. 2024 14:49, Ing. Martina Blahová

Anotace

V originále

Premise The monotypic Idahoa (I. scapigera) and the bispecific Subularia (S. aquatica and S. monticola) belong to Brassicaceae with unclear phylogenetic relationships and no tribal assignment. To fill this knowledge gap, we investigated these species and their closest relatives by combining cytogenomic and phylogenomic methods. Methods We used whole plastome sequences in maximum likelihood and Bayesian inference analyses. We tested the phylogenetic informativeness of shared genomic repeats. We combined nuclear gene tree reconciliation and comparative chromosome painting (CCP) to examine the occurrence of past whole-genome duplications (WGDs). Results The plastid data set corroborated the sister relationship between Idahoa and Subularia within the crucifer Lineage V but failed to resolve consistent topologies using both inference methods. The shared repetitive sequences provided conflicting pwhylogenetic signals. CCP analysis unexpectedly revealed that Idahoa (2n = 16) has a diploidized mesotetraploid genome, whereas two Subularia species (2n = 28 and 30) have diploidized mesoctoploid genomes. Several ancient allopolyploidy events have also been detected in closely related taxa (Chamira circaeoides, Cremolobeae, Eudemeae, and Notothlaspideae). Conclusions Our results suggest that the contentious phylogenetic placement of Idahoa and Subularia is best explained by two WGDs involving one or more shared parental genomes. The newly identified mesopolyploid genomes highlight the challenges of studying plant clades with complex polyploidy histories and provide a better framework for understanding genome evolution in the crucifer family.

Návaznosti

GA19-07487S, projekt VaV

Název: Polyploidní minulost a diploidní současnost: evoluce a diversifikace jihoafrického rodu Heliophila

Investor: Grantová agentura ČR, Polyploidní minulost a diploidní současnost: evoluce a diversifikace jihoafrického rodu Heliophila

LM2015047, projekt VaV

Název: Česká národní infrastruktura pro biologická data (Akronym: ELIXIR-CZ)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Česká národní infrastruktura pro biologická data

LM2018140, projekt VaV

Název: e-Infrastruktura CZ (Akronym: e-INFRA CZ)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, e-Infrastruktura CZ

90132, velká výzkumná infrastruktura

Název: NCMG II

Citovat

DOGAN, Mert, Terezie MALÍK MANDÁKOVÁ, Xinyi GUO a Martin LYSÁK. Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers. American Journal of Botany. St Louis: Botanical Soc Amer Inc, 2022, roč. 109, č. 8, s. 1273-1289. ISSN 0002-9122. Dostupné z: https://dx.doi.org/10.1002/ajb2.16042.

@article{2240866,
   author = {Dogan, Mert and Malík Mandáková, Terezie and Guo, Xinyi and Lysák, Martin},
   article_location = {St Louis},
   article_number = {8},
   doi = {http://dx.doi.org/10.1002/ajb2.16042},
   keywords = {Brassicaceae; CES clade; Cruciferae; Hyb-Seq; Lineage V; mesopolyploidy; plastome phylogeny; repeatome; Subularieae; whole-genome duplication},
   language = {eng},
   issn = {0002-9122},
   journal = {American Journal of Botany},
   title = {Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers},
   url = {https://bsapubs.onlinelibrary.wiley.com/doi/10.1002/ajb2.16042},
   volume = {109},
   year = {2022}
}

TY  - JOUR
ID  - 2240866
AU  - Dogan, Mert - Malík Mandáková, Terezie - Guo, Xinyi - Lysák, Martin
PY  - 2022
TI  - Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers
JF  - American Journal of Botany
VL  - 109
IS  - 8
SP  - 1273-1289
EP  - 1273-1289
PB  - Botanical Soc Amer Inc
SN  - 00029122
KW  - Brassicaceae
KW  - CES clade
KW  - Cruciferae
KW  - Hyb-Seq
KW  - Lineage V
KW  - mesopolyploidy
KW  - plastome phylogeny
KW  - repeatome
KW  - Subularieae
KW  - whole-genome duplication
UR  - https://bsapubs.onlinelibrary.wiley.com/doi/10.1002/ajb2.16042
N2  - Premise The monotypic Idahoa (I. scapigera) and the bispecific Subularia (S. aquatica and S. monticola) belong to Brassicaceae with unclear phylogenetic relationships and no tribal assignment. To fill this knowledge gap, we investigated these species and their closest relatives by combining cytogenomic and phylogenomic methods. Methods We used whole plastome sequences in maximum likelihood and Bayesian inference analyses. We tested the phylogenetic informativeness of shared genomic repeats. We combined nuclear gene tree reconciliation and comparative chromosome painting (CCP) to examine the occurrence of past whole-genome duplications (WGDs). Results The plastid data set corroborated the sister relationship between Idahoa and Subularia within the crucifer Lineage V but failed to resolve consistent topologies using both inference methods. The shared repetitive sequences provided conflicting pwhylogenetic signals. CCP analysis unexpectedly revealed that Idahoa (2n = 16) has a diploidized mesotetraploid genome, whereas two Subularia species (2n = 28 and 30) have diploidized mesoctoploid genomes. Several ancient allopolyploidy events have also been detected in closely related taxa (Chamira circaeoides, Cremolobeae, Eudemeae, and Notothlaspideae). Conclusions Our results suggest that the contentious phylogenetic placement of Idahoa and Subularia is best explained by two WGDs involving one or more shared parental genomes. The newly identified mesopolyploid genomes highlight the challenges of studying plant clades with complex polyploidy histories and provide a better framework for understanding genome evolution in the crucifer family.
ER  -

DOGAN, Mert, Terezie MALÍK MANDÁKOVÁ, Xinyi GUO a Martin LYSÁK. Idahoa and Subularia: Hidden polyploid origins of two enigmatic genera of crucifers. \textit{American Journal of Botany}. St Louis: Botanical Soc Amer Inc, 2022, roč.~109, č.~8, s.~1273-1289. ISSN~0002-9122. Dostupné z: https://dx.doi.org/10.1002/ajb2.16042.

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