Título:	Genetic diversity of Paspalum notatum based on SNP markers.
Autoria:	VIGNA, B. B. Z. ARAKAKI, J. E. PESSOA FILHO, M. A. C. de P. RIOS, E. KENWORTHY, K. FAVERO, A. P. MUDADU, M. de A.
Afiliação:	BIANCA BACCILI ZANOTTO VIGNA, CPPSE; JOYCE ETSUKO ARAKAKI, UNIVERSIDADE FEDERAL DE SÃO CARLOS; MARCO AURÉLIO CALDAS DE PINHO PESSOA FILHO, CENARGEN; ESTEBAN RIOS, UNIVERSITY OF FLORIDA; KEVIN KENWORTHY, UNIVERSITY OF FLORIDA; ALESSANDRA PEREIRA FAVERO, CPPSE; MAURICIO DE ALVARENGA MUDADU, CNPMS.
Ano de publicação:	2025
Referência:	In: CONGRESSO NACIONAL DE BOTÂNICA, 75.; REUNIÃO NORDESTINA DE BOTÂNICA 39. 2025, Parnaíba, PI. Botânica: conectando ensino, pesquisa e tecnologias de uso sustentável: anais. Parnaíba, PI: Sociedade Botânica do Brasil, 2025. p. 1018.
Conteúdo:	Abstract: Bahiagrass (Paspalum notatum Flüggé) is widely used in the Americas for animal feed, lawns, and preventing soil loss. Ploidy ranges from 2x to 5x. Self-incompatible diploids reproduce sexually, whereas polyploids are apomictic. Diploid and tetraploid cultivars have been released, but diploid cv. Pensacola is the most widely cultivated. A broad set of SNP markers is unavailable, and little is known about the bahiagrass genetic diversity. To develop genomic resources, 92 genotypes (84 diploids and eight tetraploids) were sequenced. The diploid materials are composed of 12 seedlings from each cultivar (Pensacola, UF-Riata, Tifton 9, Tifquick, and AU Sand Mountain), 20 F2 lines from the turfgrass breeding program of the University of Florida (UF) (USA), and four EMBRAPA (Brazil) accessions from the Paspalum Germplasm Bank (PGB). The tetraploid genotypes were cultivars Aruaí, Tuim, Batatais and INIA-Sepé, ecotype Bagual, one PGB accession, sexual C4-4x and hybrid C22. Total DNA Illumina libraries were constructed for 150bp paired-end sequencing with 10x and 20x coverage in an Illumina NovaSeq 6000 sequencer. After quality control, SNP calling occurred using GATK best practices, including BQSR and VQSR, adapted from the VarOvarFlow2 snakemake pipeline, using our Pensacola genome assembly. After minor allele frequency (MAF) <= 0.1, maximum missing sites > 0.9, and depth of coverage of 10, around 18.6 million bi- allelic SNPs were obtained for diploids and 20.9 million for tetraploids. The diploid and tetraploid SNP sets were merged, after diploidizing 4x samples. Pruning using a linkage disequilibrium (LD) filter left around 370k SNP. To determine relatedness, the final SNP set was analyzed using the fastreeR package in R to construct a hierarchical tree. The dissimilarity coefficients ranged from 0.12 to 0.24. As expected, tetraploids separated from diploids, and the tetraploid cluster contains dissimilarities ranging from 0.14 to 0.23; cvs. Aruaí and Batatais differing only 14%. The diploid cluster divided into three groups: (I) Pensacola plants, (II) all cultivars and the five accessions, and (III) the UF breeding materials. Cluster I is 21.5% dissimilar from the other clusters, and clusters II and III have a dissimilarity of 19%. Cluster II genotypes differ from 13% to 19%, including plants within cultivars. This work represents the first large-scale SNP set for bahiagrass and reveals an overall low genetic diversity among representative genotypes.
Thesagro:	Paspalum Notatum Variedade
NAL Thesaurus:	Cultivars Genome
Palavras-chave:	Bahiagrass Whole genome sequencing Cultivar
ISBN:	978-65-999117-5-0
Notas:	Na publicação: Marco Pessoa-Filho; Mauricio Mudadu.
Tipo do material:	Resumo em anais e proceedings
Acesso:	openAccess
Aparece nas coleções:	Resumo em anais de congresso (CPPSE)