دورية أكاديمية

A genome-wide association study identified loci for yield component traits in sugarcane (Saccharum spp.).

التفاصيل البيبلوغرافية
العنوان: A genome-wide association study identified loci for yield component traits in sugarcane (Saccharum spp.).
المؤلفون: Barreto FZ; Departamento de Biotecnologia e Produção Vegetal e Animal, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, São Paulo, Brasil., Rosa JRBF; Departamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo, Brasil.; Centro de Pesquisa e Desenvolvimento de Cultivares de Soja, Setor de Pesquisa e Desenvolvimento, FTS Sementes S.A., Ponta Grossa, Paraná, Brasil., Balsalobre TWA; Departamento de Biotecnologia e Produção Vegetal e Animal, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, São Paulo, Brasil., Pastina MM; Departamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo, Brasil.; Centro de Pesquisa e Desenvolvimento, Embrapa Milho e Sorgo, Sete Lagoas, Minas Gerais, Brasil., Silva RR; Instituto de Matemática e Estatística, Campus Samambaia, Universidade Federal de Goiás, Goiânia, Goiás, Brasil., Hoffmann HP; Departamento de Biotecnologia e Produção Vegetal e Animal, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, São Paulo, Brasil., de Souza AP; Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, São Paulo, Brasil.; Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, São Paulo, Brasil., Garcia AAF; Departamento de Genética, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo, Brasil., Carneiro MS; Departamento de Biotecnologia e Produção Vegetal e Animal, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, São Paulo, Brasil.
المصدر: PloS one [PLoS One] 2019 Jul 18; Vol. 14 (7), pp. e0219843. Date of Electronic Publication: 2019 Jul 18 (Print Publication: 2019).
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE
أسماء مطبوعة: Original Publication: San Francisco, CA : Public Library of Science
مواضيع طبية MeSH: Genome-Wide Association Study* , Quantitative Trait Loci* , Quantitative Trait, Heritable*, Saccharum/*genetics, Algorithms ; Alleles ; Genetic Linkage ; Genetic Markers ; Genetic Variation ; Genetics, Population ; Genotype ; Linkage Disequilibrium ; Models, Genetic ; Phenotype
مستخلص: Sugarcane (Saccharum spp.) has a complex genome with variable ploidy and frequent aneuploidy, which hampers the understanding of phenotype and genotype relations. Despite this complexity, genome-wide association studies (GWAS) may be used to identify favorable alleles for target traits in core collections and then assist breeders in better managing crosses and selecting superior genotypes in breeding populations. Therefore, in the present study, we used a diversity panel of sugarcane, called the Brazilian Panel of Sugarcane Genotypes (BPSG), with the following objectives: (i) estimate, through a mixed model, the adjusted means and genetic parameters of the five yield traits evaluated over two harvest years; (ii) detect population structure, linkage disequilibrium (LD) and genetic diversity using simple sequence repeat (SSR) markers; (iii) perform GWAS analysis to identify marker-trait associations (MTAs); and iv) annotate the sequences giving rise to SSR markers that had fragments associated with target traits to search for putative candidate genes. The phenotypic data analysis showed that the broad-sense heritability values were above 0.48 and 0.49 for the first and second harvests, respectively. The set of 100 SSR markers produced 1,483 fragments, of which 99.5% were polymorphic. These SSR fragments were useful to estimate the most likely number of subpopulations, found to be four, and the LD in BPSG, which was stronger in the first 15 cM and present to a large extension (65 cM). Genetic diversity analysis showed that, in general, the clustering of accessions within the subpopulations was in accordance with the pedigree information. GWAS performed through a multilocus mixed model revealed 23 MTAs, six, three, seven, four and three for soluble solid content, stalk height, stalk number, stalk weight and cane yield traits, respectively. These MTAs may be validated in other populations to support sugarcane breeding programs with introgression of favorable alleles and marker-assisted selection.
Competing Interests: The authors have declared that no competing interests exist.
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المشرفين على المادة: 0 (Genetic Markers)
تواريخ الأحداث: Date Created: 20190719 Date Completed: 20200302 Latest Revision: 20200309
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC6638961
DOI: 10.1371/journal.pone.0219843
PMID: 31318931
قاعدة البيانات: MEDLINE
الوصف
تدمد:1932-6203
DOI:10.1371/journal.pone.0219843