Inferring species networks from gene trees in high-polyploid
North American and Hawaiian violets (Viola, Violaceae)

J 2012

Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae)

MARCUSSEN, Thomas, Kjetill S. JAKOBSEN, Jiří DANIHELKA, Harvey E. BALLARD, Kim BLAXLAND et. al.

Základní údaje

Originální název

Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae)

Název česky

Rekonstrukce retikulárních evolučních vztahů polyploidních violek (Viola, Violaceae) Severní Ameriky a Havajských ostrovů na základě genových dendrogramů

Autoři

MARCUSSEN, Thomas (578 Norsko, garant), Kjetill S. JAKOBSEN (578 Norsko), Jiří DANIHELKA (203 Česká republika, domácí), Harvey E. BALLARD (840 Spojené státy), Kim BLAXLAND (840 Spojené státy), Anne K. BRYSTING (578 Norsko) a Bengt OXELMAN (752 Švédsko)

Vydání

Systematic Biology, Oxford University Press, 2012, 1063-5157

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10600 1.6 Biological sciences

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 12.169

Kód RIV

RIV/00216224:14310/12:00059751

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1093/sysbio/syr096

UT WoS

000299195700008

Klíčová slova anglicky

Allopolyploidy; BEAST; homoeolog loss; low-copy nuclear gene; PADRE; single-molecule PCR; species network; Viola

Štítky

AKR, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 20. 12. 2012 17:27, Ing. Jiří Danihelka, Ph.D.

Anotace

ORIG CZ

V originále

The phylogenies of allopolyploids take the shape of networks and cannot be adequately represented as bifurcating trees. Especially for high polyploids the signatures of gene homoeolog loss, deep coalescence, and polyploidy may become confounded, with the result that gene trees may be congruent with more than one species network. Herein, we obtained the most parsimonious species network by objective comparison of competing scenarios involving polyploidization and homoeolog loss in a high-polyploid lineage of violets (Viola, Violaceae) mostly or entirely restricted to North America, Central America, or Hawaii. We amplified homoeologs of the low-copy nuclear gene, glucose-6-phosphate isomerase (GPI), by single-molecule polymerase chain reaction (PCR)and the chloroplast trnL-F region by conventional PCR for 51 species and subspecies. Topological incongruence among GPI homoeolog subclades, owing to deep coalescence and two instances of putative loss (or lack of detection) of homoeologs, were reconciled by applying the maximum tree topology for each subclade. The most parsimonious species network and the fossil-based calibration of the homoeolog tree favored monophyly of the high polyploids, which has resulted from allodecaploidization 9–14 Ma, involving sympatric ancestors from the extant Viola sections Chamaemelanium (diploid), Plagiostigma (paleotetraploid), and Viola (paleotetraploid). Although two of the high-polyploid lineages (Boreali-Americanae, Pedatae) remained decaploid, recurrent polyploidization with tetraploids of section Plagiostigma within the last 5 Ma has resulted in two 14-ploid lineages (Mexicanae, Nosphinium) and one 18-ploid lineage (Langsdorffianae). This implies a more complex phylogenetic and biogeographic origin of the Hawaiian violets (Nosphinium) than that previously inferred from rDNA data and illustrates the necessity of considering polyploidy in phylogenetic and biogeographic reconstruction.

Česky

Na základě analýzy jednotlivých homeologů jaderného genu syntetizující enzym glukózo-6-fosfát isomeráza u vysoce polyploidních druhů Viola ze Severní Ameriky a Havajských ostrovů se podařilo vysvětlit jejich evoluční původ. Ukazuje se, že na vzniku těchto vysoce ploidních druhů (2n = 10x, 14x, 18x), které mají pravděpodobně společného dekaploidního předka, se podílely druhy z dnes rozeznávaných sekcí Chamaemelanium (2x), Viola (4x) a Plagiostigma (4x).

Návaznosti

LC06073, projekt VaV

Název: Centrum pro výzkum biodiverzity

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Centrum pro výzkum biodiverzity

MSM0021622416, záměr

Název: Diverzita biotických společenstev a populací: kauzální analýza variability v prostoru a čase

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Diverzita biotických společenstev: kauzální analýza variability v prostoru a čase

Citovat

MARCUSSEN, Thomas, Kjetill S. JAKOBSEN, Jiří DANIHELKA, Harvey E. BALLARD, Kim BLAXLAND, Anne K. BRYSTING a Bengt OXELMAN. Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae). Systematic Biology. Oxford University Press, 2012, roč. 61, č. 1, s. 107-126. ISSN 1063-5157. Dostupné z: https://dx.doi.org/10.1093/sysbio/syr096.

@article{980073,
   author = {Marcussen, Thomas and Jakobsen, Kjetill S. and Danihelka, Jiří and Ballard, Harvey E. and Blaxland, Kim and Brysting, Anne K. and Oxelman, Bengt},
   article_number = {1},
   doi = {http://dx.doi.org/10.1093/sysbio/syr096},
   keywords = {Allopolyploidy; BEAST; homoeolog loss; low-copy nuclear gene; PADRE; single-molecule PCR; species network; Viola},
   language = {eng},
   issn = {1063-5157},
   journal = {Systematic Biology},
   title = {Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae)},
   url = {http://sysbio.oxfordjournals.org/content/61/1/107.full.pdf+html?sid=2c61b0d9-3607-44ea-ae91-f832e99482db},
   volume = {61},
   year = {2012}
}

TY  - JOUR
ID  - 980073
AU  - Marcussen, Thomas - Jakobsen, Kjetill S. - Danihelka, Jiří - Ballard, Harvey E. - Blaxland, Kim - Brysting, Anne K. - Oxelman, Bengt
PY  - 2012
TI  - Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae)
JF  - Systematic Biology
VL  - 61
IS  - 1
SP  - 107-126
EP  - 107-126
PB  - Oxford University Press
SN  - 10635157
KW  - Allopolyploidy
KW  - BEAST
KW  - homoeolog loss
KW  - low-copy nuclear gene
KW  - PADRE
KW  - single-molecule PCR
KW  - species network
KW  - Viola
UR  - http://sysbio.oxfordjournals.org/content/61/1/107.full.pdf+html?sid=2c61b0d9-3607-44ea-ae91-f832e99482db
N2  - The phylogenies of allopolyploids take the shape of networks and cannot be adequately represented as bifurcating trees. Especially for high polyploids the signatures of gene homoeolog loss, deep coalescence, and polyploidy may become confounded, with the result that gene trees may be congruent with more than one species network. Herein, we obtained the most parsimonious species network by objective comparison of competing scenarios involving polyploidization and homoeolog loss in a high-polyploid lineage of violets (Viola, Violaceae) mostly or entirely restricted to North America, Central America, or Hawaii. We amplified homoeologs of the low-copy nuclear gene, glucose-6-phosphate isomerase (GPI), by single-molecule polymerase chain reaction (PCR)and the chloroplast trnL-F region by conventional PCR for 51 species and subspecies. Topological incongruence among GPI homoeolog subclades, owing to deep coalescence and two instances of putative loss (or lack of detection) of homoeologs, were reconciled by applying the maximum tree topology for each subclade. The most parsimonious species network and the fossil-based calibration of the homoeolog tree favored monophyly of the high polyploids, which has resulted from allodecaploidization 9–14 Ma, involving sympatric ancestors from the extant Viola sections Chamaemelanium (diploid), Plagiostigma (paleotetraploid), and Viola (paleotetraploid). Although two of the high-polyploid lineages (Boreali-Americanae, Pedatae) remained decaploid, recurrent polyploidization with tetraploids of section Plagiostigma within the last 5 Ma has resulted in two 14-ploid lineages (Mexicanae, Nosphinium) and one 18-ploid lineage (Langsdorffianae). This implies a more complex phylogenetic and biogeographic origin of the Hawaiian violets (Nosphinium) than that previously inferred from rDNA data and illustrates the necessity of considering polyploidy in phylogenetic and biogeographic reconstruction.
ER  -

MARCUSSEN, Thomas, Kjetill S. JAKOBSEN, Jiří DANIHELKA, Harvey E. BALLARD, Kim BLAXLAND, Anne K. BRYSTING a Bengt OXELMAN. Inferring species networks from gene trees in high-polyploid North American and Hawaiian violets (Viola, Violaceae). \textit{Systematic Biology}. Oxford University Press, 2012, roč.~61, č.~1, s.~107-126. ISSN~1063-5157. Dostupné z: https://dx.doi.org/10.1093/sysbio/syr096.

Podrobný výpis o publikaci