Genome‐wide association analysis of agronomical and physiological traits linked to drought tolerance in a diverse potatoes ( Solanum tuberosum ) panel

Abstract Characterizing the whole genetic architecture of drought tolerance (DT) is a persistent challenge for the breeders. Here we developed a half-sib population comprising of 404 lines of two recombinant inbred line (RIL) populations with M8206 as the joint parent (M8206 × TongShan and ZhengYang × M8206) and tested for its DT under sand culture. The population was sequenced using restriction-site-associated DNA sequencing filtered with minor allele frequency ≥0.01; 55,936 single nucleotide polymorphisms (SNPs) were obtained and assembled into 6137 SNPLDBs (SNP linkage disequilibrium blocks). The restricted two-stage multi-locus genome-wide association analysis characterized with error and false-positive control identified 40 QTLs with 93 alleles on an average of 34.75% of the phenotypic variance (PV) collectively for relative root length (RRL) and relative shoot length (RSL) that served as potential DT indicators. Among these, eight loci corresponded to previously reported QTLs, whereas 32 loci were therefore novel. The identified QTLs with their corresponding alleles for RRL and RSL were organized into QTL-allele matrices, depicting the comprehensive DT genetic architecture of the three parents/half-sib population. From the matrices, we predicted the possible best/optimal genotype with weighted average value (WAV) 1.553 over two indicators, while for the top 10 single crosses among RILs with 95th percentile WAV was 1.218–1.257, transgressive over the parents (0.693–0.794) yet much less than 1.553. From the detected QTL-allele system, 65 potential candidate genes collectively for both indicators explaining on an average of 24.41% PV were annotated and χ2-tested as a DT candidate gene system involving nine biological processes.

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Faculty Opinions recommendation of Genome-wide association analysis identifies loci for type 2 diabetes and triglyceride levels.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1083881.536824 ◽

2007 ◽

Cited By ~ 1

Author(s):

Terri Beaty

Keyword(s):

Type 2 Diabetes ◽

Association Analysis ◽

Genome Wide Association ◽

Genome Wide Association Analysis ◽

Genome Wide

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Faculty Opinions recommendation of Alpha-T-catenin (CTNNA3) gene was identified as a risk variant for toluene diisocyanate-induced asthma by genome-wide association analysis.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1157877.619129 ◽

2009 ◽

Author(s):

Francine Kauffmann ◽

Lidwien Smit

Keyword(s):

Association Analysis ◽

Toluene Diisocyanate ◽

Genome Wide Association ◽

Risk Variant ◽

Genome Wide Association Analysis ◽

Genome Wide

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A Caution in Association of ABO Blood Group with COVID-19

Global Clinical and Translational Research ◽

10.36316/02.0031 ◽

2020 ◽

Cited By ~ 2

Keyword(s):

Gene Cluster ◽

Clinical Outcomes ◽

Blood Group ◽

Association Analysis ◽

Blood Type ◽

Genome Wide Association ◽

Chromosome 3 ◽

Abo Blood Group ◽

Genome Wide Association Analysis ◽

Genome Wide

A comment on Zhao J, Yang Y, Huang H, Li D, Gu D, Lu X, et al. Association of ABO blood group and Covid19 susceptability. medRxiv [PREPRINT]. 2020; https://doi.org/10.1101/2020.03.11.20031096. Zeng X, Fan H, Lu D, Huang F, Meng X, Li Z, et al. Association between ABO blood group and clinical outcomes of Covid19. medRxiv[PREPRINT].2020; https://doi.org/10.1101/2020.04.15.20063107. Zietz M, Tatonetti N. Testing the association between blood type and COVID-19 infection, intubation, and death medRxiv [PREPRINT]. 2020; https://doi.org/10.1101/2020.04.08.20058073. Ellinghaus D, Degenhardt F, Bujanda L, al. e. The ABO blood group and a chromosome 3 gene cluster associate with SRAS-CoV2 respitarory failure in an Italy-Spain genome-wide association analysis. medRxiv. 2020; https://doi.org/10.1101/2020.05.31.20114991.

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