Translocations and inversions: major chromosomal rearrangements during Vigna (Leguminosae) evolution

• Published in: Theoretical and applied genetics Vol. 137; no. 1; p. 29
• Main Authors: Dias, Sibelle, de Oliveira Bustamante, Fernanda, do Vale Martins, Lívia, da Costa, Victor Alves, Montenegro, Claudio, Oliveira, Ana Rafaela da Silva, de Lima, Geyse Santos, Braz, Guilherme Tomaz, Jiang, Jiming, da Costa, Antônio Félix, Benko-Iseppon, Ana Maria, Brasileiro-Vidal, Ana Christina
• Format: Journal Article
• Language: English
• Published: Berlin/Heidelberg Springer Berlin Heidelberg 01.01.2024; Springer Nature B.V
• Subjects: Agriculture; Biochemistry; Biomedical and Life Sciences; Biotechnology; Chromosome 11; Chromosome 4; Chromosome deletion; Chromosome rearrangements; Chromosome translocations; Chromosomes; Cytogenetics; Divergence; DNA probes; Evolution; Fluorescence in situ hybridization; Gene mapping; Gene Rearrangement; Genomics; In Situ Hybridization, Fluorescence; Karyotypes; Life Sciences; Oligonucleotides; Original Article; Phaseolus - genetics; Phaseolus vulgaris; Plant Biochemistry; Plant Breeding/Biotechnology; Plant Genetics and Genomics; Translocation, Genetic; Vigna; Vigna - genetics; Vigna radiata; Vigna unguiculata; Vigna vexillata
• ISSN: 0040-5752; 1432-2242
• DOI: 10.1007/s00122-024-04546-8

Key message Inversions and translocations are the major chromosomal rearrangements involved in Vigna subgenera evolution, being Vigna vexillata the most divergent species. Centromeric repositioning seems to be frequent within the genus. Oligonucleotide-based fluorescence in situ hybridization (Oligo-FISH) provides a powerful chromosome identification system for inferring plant chromosomal evolution. Aiming to understand macrosynteny, chromosomal diversity, and the evolution of bean species from five Vigna subgenera, we constructed cytogenetic maps for eight taxa using oligo-FISH-based chromosome identification. We used oligopainting probes from chromosomes 2 and 3 of Phaseolus vulgaris L. and two barcode probes designed from V. unguiculata (L.) Walp. genome. Additionally, we analyzed genomic blocks among the Ancestral Phaseoleae Karyotype (APK), two V. unguiculata subspecies ( V. subg. Vigna ), and V. angularis (Willd.) Ohwi & Ohashi ( V. subg. Ceratotropis ). We observed macrosynteny for chromosomes 2, 3, 4, 6, 7, 8, 9, and 10 in all investigated taxa except for V. vexillata (L.) A. Rich ( V. subg. Plectrotropis ), in which only chromosomes 4, 7, and 9 were unambiguously identified. Collinearity breaks involved with chromosomes 2 and 3 were revealed. We identified minor differences in the painting pattern among the subgenera, in addition to multiple intra- and interblock inversions and intrachromosomal translocations. Other rearrangements included a pericentric inversion in chromosome 4 ( V. subg. Vigna ), a reciprocal translocation between chromosomes 1 and 5 ( V. subg. Ceratotropis ), a potential deletion in chromosome 11 of V. radiata (L.) Wilczek, as well as multiple intrablock inversions and centromere repositioning via genomic blocks. Our study allowed the visualization of karyotypic patterns in each subgenus, revealing important information for understanding intrageneric karyotypic evolution, and suggesting V. vexillata as the most karyotypically divergent species. Graphical abstract