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

ZUO, Sheng, Terezie MALÍK MANDÁKOVÁ, Michaela KUBOVÁ and Martin LYSÁK. Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales). PLANT JOURNAL. ENGLAND: WILEY, 2022, vol. 110, No 5, p. 1462-1475. ISSN 0960-7412. Available from: https://dx.doi.org/10.1111/tpj.15750.

Basic information

• Original name: Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales)
• Authors: ZUO, Sheng (156 China, belonging to the institution), Terezie MALÍK MANDÁKOVÁ (203 Czech Republic, belonging to the institution), Michaela KUBOVÁ (203 Czech Republic, belonging to the institution) and Martin LYSÁK (203 Czech Republic, guarantor, belonging to the institution).
• Edition: PLANT JOURNAL, ENGLAND, WILEY, 2022, 0960-7412.

Other information

• Original language: English
• Type of outcome: Article in a journal
• Field of Study: 10611 Plant sciences, botany
• Country of publisher: United States of America
• Confidentiality degree: is not subject to a state or trade secret
• WWW: URL
• Impact factor: Impact factor: 7.200
• RIV identification code: RIV/00216224:14740/22:00125618
• Organization unit: Central European Institute of Technology
• Doi: http://dx.doi.org/10.1111/tpj.15750
• UT WoS: 000787376300001
• Keywords in English: Brassicales chromosomes DNA repeats interphase Limnanthes meadowfoam Rabl repeatome
• Tags: CF CELLIM, CF GEN, CF PLANT, rivok
• Tags: International impact, Reviewed

Abstract

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.

Links

• EF19_073/0016943, research and development project: Name: Interní grantová agentura Masarykovy univerzity
• GA18-20134S, research and development project: Name: Organizace interfázních chromosomů a časné meiotické párování chromosomů u brukvovitých

Investor: Czech Science Foundation

• LM2018140, research and development project: Name: e-Infrastruktura CZ (Acronym: e-INFRA CZ)

Investor: Ministry of Education, Youth and Sports of the CR