Genomes, repeatomes and interphase chromosome organization in
the meadowfoam family (Limnanthaceae, Brassicales)

J 2022

Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales)

ZUO, Sheng, Terezie MALÍK MANDÁKOVÁ, Michaela KUBOVÁ a Martin LYSÁK

Základní údaje

Originální název

Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales)

Autoři

ZUO, Sheng (156 Čína, domácí), Terezie MALÍK MANDÁKOVÁ (203 Česká republika, domácí), Michaela KUBOVÁ (203 Česká republika, domácí) a Martin LYSÁK (203 Česká republika, garant, domácí)

Vydání

PLANT JOURNAL, ENGLAND, WILEY, 2022, 0960-7412

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: 7.200

Kód RIV

RIV/00216224:14740/22:00125618

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1111/tpj.15750

UT WoS

000787376300001

Klíčová slova anglicky

Brassicales chromosomes DNA repeats interphase Limnanthes meadowfoam Rabl repeatome

Štítky

CF CELLIM, CF GEN, CF PLANT, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 15. 10. 2024 14:48, Ing. Martina Blahová

Anotace

V originále

The meadowfoam family (Limnanthaceae) is one of the smallest and genomically underexplored families of the Brassicales. The Limnanthaceae harbor about seven species in the genus Limnanthes (meadowfoam) and Floerkea proserpinacoides (false mermaidweed), all native to North America. Because all Limnanthes and Floerkea species have only five chromosome pairs, i.e., a chromosome number rare in Brassicales and shared with Arabidopsis thaliana (Arabidopsis), we examined the Limnanthaceae genomes as a potential model system. Using low-coverage whole-genome sequencing data, we reexamined phylogenetic relationships and characterized the repeatomes of Limnanthaceae genomes. Phylogenies based on complete chloroplast and 35S rDNA sequences corroborated the sister relationship between Floerkea and Limnanthes and two major clades in the latter genus. The genome size of Limnanthaceae species ranges from 1.5 to 2.1 Gb, apparently due to the large increase in DNA repeats, which constitute 60-70% of their genomes. Repeatomes are dominated by long terminal repeat retrotransposons, while tandem repeats represent only less than 0.5% of the genomes. The average chromosome size in Limnanthaceae species (340-420 Mb) is more than 10 times larger than in Arabidopsis (32 Mb). A three-dimensional fluorescence in situ hybridization analysis demonstrated that the five chromosome pairs in interphase nuclei of Limnanthes species adopt the Rabl-like configuration.

Návaznosti

EF19_073/0016943, projekt VaV

Název: Interní grantová agentura Masarykovy univerzity

GA18-20134S, projekt VaV

Název: Organizace interfázních chromosomů a časné meiotické párování chromosomů u brukvovitých

Investor: Grantová agentura ČR, Organizace interfázních chromosomů a časné meiotické párování chromosomů u brukvovitých

LM2018140, projekt VaV

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

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

90129, velká výzkumná infrastruktura

Název: Czech-BioImaging II

90132, velká výzkumná infrastruktura

Název: NCMG II

Citovat

ZUO, Sheng, Terezie MALÍK MANDÁKOVÁ, Michaela KUBOVÁ a Martin LYSÁK. Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales). PLANT JOURNAL. ENGLAND: WILEY, 2022, roč. 110, č. 5, s. 1462-1475. ISSN 0960-7412. Dostupné z: https://dx.doi.org/10.1111/tpj.15750.

@article{1845119,
   author = {Zuo, Sheng and Malík Mandáková, Terezie and Kubová, Michaela and Lysák, Martin},
   article_location = {ENGLAND},
   article_number = {5},
   doi = {http://dx.doi.org/10.1111/tpj.15750},
   keywords = {Brassicales chromosomes DNA repeats interphase Limnanthes meadowfoam Rabl repeatome},
   language = {eng},
   issn = {0960-7412},
   journal = {PLANT JOURNAL},
   title = {Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales)},
   url = {https://onlinelibrary.wiley.com/doi/10.1111/tpj.15750},
   volume = {110},
   year = {2022}
}

TY  - JOUR
ID  - 1845119
AU  - Zuo, Sheng - Malík Mandáková, Terezie - Kubová, Michaela - Lysák, Martin
PY  - 2022
TI  - Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales)
JF  - PLANT JOURNAL
VL  - 110
IS  - 5
SP  - 1462-1475
EP  - 1462-1475
PB  - WILEY
SN  - 09607412
KW  - Brassicales chromosomes DNA repeats interphase Limnanthes meadowfoam Rabl repeatome
UR  - https://onlinelibrary.wiley.com/doi/10.1111/tpj.15750
N2  - The meadowfoam family (Limnanthaceae) is one of the smallest and genomically underexplored families of the Brassicales. The Limnanthaceae harbor about seven species in the genus Limnanthes (meadowfoam) and Floerkea proserpinacoides (false mermaidweed), all native to North America. Because all Limnanthes and Floerkea species have only five chromosome pairs, i.e., a chromosome number rare in Brassicales and shared with Arabidopsis thaliana (Arabidopsis), we examined the Limnanthaceae genomes as a potential model system. Using low-coverage whole-genome sequencing data, we reexamined phylogenetic relationships and characterized the repeatomes of Limnanthaceae genomes. Phylogenies based on complete chloroplast and 35S rDNA sequences corroborated the sister relationship between Floerkea and Limnanthes and two major clades in the latter genus. The genome size of Limnanthaceae species ranges from 1.5 to 2.1 Gb, apparently due to the large increase in DNA repeats, which constitute 60-70% of their genomes. Repeatomes are dominated by long terminal repeat retrotransposons, while tandem repeats represent only less than 0.5% of the genomes. The average chromosome size in Limnanthaceae species (340-420 Mb) is more than 10 times larger than in Arabidopsis (32 Mb). A three-dimensional fluorescence in situ hybridization analysis demonstrated that the five chromosome pairs in interphase nuclei of Limnanthes species adopt the Rabl-like configuration.
ER  -

ZUO, Sheng, Terezie MALÍK MANDÁKOVÁ, Michaela KUBOVÁ a Martin LYSÁK. Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales). \textit{PLANT JOURNAL}. ENGLAND: WILEY, 2022, roč.~110, č.~5, s.~1462-1475. ISSN~0960-7412. Dostupné z: https://dx.doi.org/10.1111/tpj.15750.

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