Genome-wide association study uncovers major genetic loci associated with seed flooding tolerance in soybean

BMC Plant Biology

Table 3 A subset of candidate and hub genes adjacent four SNPs associated with soybean seed flooding tolerance at the germination stage

Candidate Gene ID ^a	Position (bp)^b	Homolog in Arabidopsis	Functional annotation^c
Glyma.01G198000	53,200,980–53,202,684	AT4G37850	Transcription factor bHLH18
Glyma.01G206300	53,862,540–53,862,540	AT5G60900	G-Type Lectin S-Receptor-Like Serine/Threonine-Protein Kinase
Glyma.05G006700	608,574–621,690	AT5G14720	Protein kinase superfamily protein
Glyma.05G008000	749,837–753,271	AT2G02160	CCCH-type zinc finger family protein
Glyma.08G152800	11,760,404–11,762,319	AT3G12610	Leucine-rich repeat (LRR) family protein
Glyma.08G152900	11,780,677–11,784,610	AT5G40410	Tetratricopeptide repeat (TPR)-like superfamily protein
Glyma.08G344500	45,957,501–45,962,417	AT4G17570	GATA Transcription factor 26
Glyma.08G348500	46,292,645–46,301,440	AT2G15490	UDP-glycosyltransferase
Hub genes
Glyma.01G207700	53,959,688–53,961,931	AT4G16720	Ribosomal protein L23/L15e family protein
Glyma.05G016800	1,491,261–1,493,536	AT5G08180	Ribosomal protein L23/L15e family protein
Glyma.08G159800	12,386,775–12,390,398	AT3G04770	40s ribosomal protein SA B

^aGenes position in Glyma2.0 version obtained from SoyBase while those with bolded font are hub genes (highly connected genes in the network)
^bGenes start and end positions in Glyma2.0 version
^cPossible functional annotation obtained from SoyBase (https://soybase.org/) and Phytozome (https://phytozome.jgi.doe.gov/pz/portal.html)

ISSN: 1471-2229