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GrainGenes Reference Report: BMG-18-567

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Reference	BMG-18-567
Title	Development of a high-density linkage map and mapping of the three-pistil gene (Pis1) in wheat using GBS markers
Journal	BMC Genomics
Year	2017
Volume	18
Pages	567-574
Author	Yang Z [ Show all 6 ]
Abstract	Background: The wheat mutant line three-pistil (TP) exhibits three pistils per floret. As TP normally has two or three seeds in each of the florets on the same spike, there is the possibility of increasing the number of grains per spike. Therefore, TP is a highly valuable mutant for breeding and for the study of floral development in wheat. To map the three-pistil gene (Pis1), genotyping-by-sequencing single-nucleotide polymorphism (GBS-SNP) data from an F2 mapping population (CM28 x CM28TP) was used to construct a genetic map that is of significant value. Results: In the present study, a high-density genetic map of wheat containing 2917 GBS-SNP markers was constructed. Twenty-one linkage groups were resolved, with a total length of 2371.40 cM. The individual chromosomes range from 2.64 cM to 454.55 cM with an average marker density of 0.81 cM. The Pis1 gene was mapped using this high-resolution map, and two flanking SNP markers tightly linked to the gene, M70 and M71, were identified. The Pis1 is 3.00 cM from M70 and 1.10 cM from M71. In bread wheat genome, M70 and M71 were found to delimit a physical distance of 3.40 Mb, which encompasses 127 protein-coding genes. To validate the GBS-generated genotypic data and to eliminate missing marker data in the Pis1 region, five Kompetitive Allele-Specific PCR (KASP) assays were designed from corresponding GBS sequences, which harbor SNPs that surround Pis1. Three KASP-SNP markers, KM70, KM71, and KM75, were remapped to the Pis1 gene region. Conclusions : This work not only lays the foundation for the map-based cloning of Pis1 but can also serve as a valuable tool for studying marker-trait association of important traits and marker-assisted breeding in wheat.
External Databases	https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3960-7
Gene	[ Hide all but 1 of 90 ] Pis1 (Triticum) polyphenol oxidase, partial Probable purine permease 11 PREDICTED: extensin-like Lupus brain antigen 1-like protein vacuolar ATPase subunit G 60 kDa jasmonate-induced protein-like hypothetical protein F775_31693 putative polyamine oxidase 2 PREDICTED: uncharacterized protein LOC104582380 alpha-1,3/1,6-mannosyltransferase ALG2 Putative glucose-6-phosphate 1-epimerase E3 ubiquitin ligase BIG BROTHER-related protein E3 ubiquitin-protein ligase RNF14 Disease resistance protein RGA2 PREDICTED: uncharacterized protein LOC100821374 PREDICTED: altered inheritance rate of mitochondria protein 25 transposon protein, putative, Mutator sub-class Anthocyanidin reductase expansin EXPA7 histone H4 hypothetical protein F775_27351 hypothetical protein F775_09405 Adenosylhomocysteinase Protein pelota Putative serine/threonine-protein kinase receptor zinc finger matrin-type protein 2 amylogenin Putative protein phosphatase 2C 45 S-locus receptor-like kinase RLK11 hypothetical protein F775_42412 (Aegilops tauschii) Vacuolar proton translocating ATPase 100 kDa subunit sulfate transporter ribosomal protein L32 (chloroplast) Protein IQ-DOMAIN 32 Tropinone reductase-like protein auxin response factor 4 predicted protein Ribosomal RNA processing protein 1-like protein Peroxidase 12 hypothetical protein F775_06226 heat shock protein binding protein Squamosa promoter-binding-like protein 8 Indole-3-glycerol phosphate lyase, chloroplastic Dehydration-responsive element-binding protein 2A Zinc finger CCCH domain-containing protein 30 Solute carrier family 22 member 15-like protein Cell division protein ftsZ-like protein, chloroplastic DEAD-box ATP-dependent RNA helicase 48 similar to putative receptor protein kinase from A. thaliana putative TLD family protein serine-threonine protein kinase Farnesyl pyrophosphate synthetase Zinc finger CCCH domain-containing protein 31 Plasma membrane ATPase hypothetical protein F775_06421 Auxin response factor 11 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial Disease resistance protein RPM1 Putative ribonuclease H protein PREDICTED: transcription factor IBH1 plastid glutamine synthetase 2 DNA topoisomerase 1 Transmembrane 9 superfamily member 4 Transmembrane 9 superfamily member 2 U3 small nucleolar ribonucleoprotein IMP3 uncharacterized protein LOC100283988 26S proteasome regulatory particle non-ATPase subunit8 cofactor required for Sp1 transcriptional activation subunit 9 Inositol-pentakisphosphate 2-kinase ATP/GTP binding protein Kinesin-like calmodulin-binding protein-like protein Cysteine-rich receptor-like protein kinase 10 Ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic Molybdopterin biosynthesis protein CNX1 Protein RCC2 Palmitoyltransferase akr1 Putative serine/threonine-protein kinase glutathione transferase Glutamyl-tRNA(Gln) amidotransferase subunit A Os02g0227100, partial D-3-phosphoglycerate dehydrogenase, chloroplastic Lipoxygenase 1 Xyloglucan endotransglucosylase/hydrolase protein 9 JmjC domain-containing protein C2 domain-containing protein Cytochrome P450 84A1 Ubiquitin carboxyl-terminal hydrolase 22 Putative lipoate-protein ligase A Universal stress protein A-like protein
Gene Class	Multi-gynoecium
Germplasm	Chuanmai 28 CM28TP
Locus	M70 [ Show all 124 ]
Map Data	Wheat, CM28xCM28TP, Pis1 QTL
Probe	K2DL_CSv1_136805221 K2DL_CSv1_140258883
QTL	QPis1.CM28TP-2D
Keyword	Kompetitive allele-specific PCR (KASP) Three-pistil mutation Wheat Genotyping-by-sequencing (GBS)

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