Mutant allele frequencies in domestic cat populations on the Spanish Mediterranean coast, and their genetic distances from other European and North African cat populations

“…With the development of molecular genetics and molecular marker technology (Keim et al, 1990), the traditional breeding process has been greatly improved, producing cultivars with excellent traits.…”

Section: Introductionmentioning

confidence: 99%

Linkage Analysis and Multi-Locus Genome-Wide Association Studies Identify QTNs Controlling Soybean Plant Height

et al. 2020

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Plant height is an important target for soybean breeding. It is a typical quantitative trait controlled by multiple genes and is susceptible to environmental influences. Here, we carried out phenotypic analysis of 156 recombinant inbred lines derived from "Dongnong L13" and "Henong 60" in nine environments at four locations over 6 years using interval mapping and inclusive composite interval mapping methods. We performed quantitative trait locus (QTL) analysis by applying pre-built simple-sequence repeat maps. We detected 48 QTLs, including nine significant QTLs detected by multiple methods and in multiple environments. Meanwhile, genotyping of all lines using the SoySNP660k BeadChip produced 54,836 non-redundant single-nucleotide polymorphism (SNP) genotypes. We used five multi-locus genome-wide association analysis methods to locate 10 quantitative trait nucleotides (QTNs), four of which overlap with previously located QTLs. Five candidate genes related to plant height are predicted to lie within 200 kb of these four QTNs. We identified 19 homologous genes in Arabidopsis, two of which may be associated with plant height. These findings further our understanding of the multigene regulatory network and genetic determinants of soybean plant height, which will be important for breeding high-yielding soybean.

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“…In the past decades, QTL mapping and GWAS were performed based on randomly amplified polymorphic DNA (RAPDs) (Qu and Hancock, 1997), restriction fragment length polymorphisms (RFLPs) (Keim et al, 1990), amplified fragment length polymorphisms (AFLPs) (Vos et al, 1995;Chagne et al, 2002), simple sequence repeats (SSRs) (Torada et al, 2005), and sequence-tagged site (STS) markers (Talbert et al, 1994). However, the number of these markers is limited, and this affects the accuracy and efficiency of QTL mapping and GWAS.…”

Section: Introductionmentioning

confidence: 99%

Identification and Validation of New Stable QTLs for Grain Weight and Size by Multiple Mapping Models in Common Wheat

Cao

Shang

et al. 2020

Front. Genet.

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Improvement of grain weight and size is an important objective for high-yield wheat breeding. In this study, 174 recombinant inbred lines (RILs) derived from the cross between Jing 411 and Hongmangchun 21 were used to construct a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq). Three mapping methods, including inclusive composite interval mapping (ICIM), genome-wide composite interval mapping (GCIM), and a mixed linear model performed with forward–backward stepwise (NWIM), were used to identify QTLs for thousand grain weight (TGW), grain width (GW), and grain length (GL). In total, we identified 30, 15, and 18 putative QTLs for TGW, GW, and GL that explain 1.1–33.9%, 3.1%–34.2%, and 1.7%–22.8% of the phenotypic variances, respectively. Among these, 19 (63.3%) QTLs for TGW, 10 (66.7%) for GW, and 7 (38.9%) for GL were consistent with those identified by genome-wide association analysis in 192 wheat varieties. Five new stable QTLs, including 3 for TGW ( Qtgw.ahau-1B.1 , Qtgw.ahau-4B.1 , and Qtgw.ahau-4B.2 ) and 2 for GL ( Qgl.ahau-2A.1 and Qgl.ahau-7A.2 ), were detected by the three aforementioned mapping methods across environments. Subsequently, five cleaved amplified polymorphic sequence (CAPS) markers corresponding to these QTLs were developed and validated in 180 Chinese mini-core wheat accessions. In addition, 19 potential candidate genes for Qtgw.ahau-4B.2 in a 0.31-Mb physical interval were further annotated, of which TraesCS4B02G376400 and TraesCS4B02G376800 encode a plasma membrane H + -ATPase and a serine/threonine-protein kinase, respectively. These new QTLs and CAPS markers will be useful for further marker-assisted selection and map-based cloning of target genes.

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Mutant allele frequencies in domestic cat populations on the Spanish Mediterranean coast, and their genetic distances from other European and North African cat populations

Cited by 13 publications

References 15 publications

Evidence of Selection on the Orange Allele in the Domestic Cat Felis catus: The Role of Social Structure

Evidence of Selection on the Orange Allele in the Domestic Cat Felis catus: The Role of Social Structure

Linkage Analysis and Multi-Locus Genome-Wide Association Studies Identify QTNs Controlling Soybean Plant Height

Identification and Validation of New Stable QTLs for Grain Weight and Size by Multiple Mapping Models in Common Wheat

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