Flax Genome Association Analysis: A Review

doi:10.11924/j.issn.1000-6850.casb2021-0093

Abstract

Abstract:

Genome wide association study (GWAS) is a method by applying single nucleotide polymorphism (SNP) to find genetic variation that affect complex traits at the genome-wide level. In order to strengthen the application of GWAS in flax breeding, in this article, its advantages and analysis process were summarized, the marker sites and candidate genes located by GWAS at home or abroad in recent years were enumerated, which were about the yield-related traits and quality-related traits of flax. The research status of flax powdery mildew and the related research of other crops in GWAS were concluded. The future development trend of GWAS in flax breeding and disease resistance was discussed. The study could provide a theoretical basis for GWAS in flax research.

Key words: flax, genome wide association study (GWAS), single nucleotide polymorphism (SNP), complex traits, powdery mildew

CLC Number:

S563.2

Lu Meiguang, Duan Haiyan, Jiang Gonghao. Flax Genome Association Analysis: A Review[J]. Chinese Agricultural Science Bulletin, 2021, 37(21): 111-118.

Figures/Tables 2

References 54

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类别	性状		材料数量		标记		获得的标记位点或候选基因		参考文献
产量相关性状	PH		269		SRAP、SNP		scaffold9：516785等		[21]
			390		SSR		Lu943、Lu316		[22]
			224		SLAF		UGT、PL、Lus10016125等		[23][24]
	TSW		269		SRAP、SNP		scaffold261：57823等		[21]
			390		SSR		Lu2164、Lu2555等		[22]
			224		SLAF		PHO1		[23]
	BN		269		SRAP、SNP		scaffold31：1694349等		[21]
			390		SSR		Lu2067a		[22]
			224		SLAF		GRAS、XTH等		[23]
	CN		269		SRAP、SNP		scaffold462：594151		[21]
	CN		224		SLAF		Contig1437、LU0019C12等		[23]
	FL		269		SRAP、SNP		scaffold123:1933585等		[21]
	SPC		269		SRAP、SNP		scaffold312：72968等		[21]
	SWP		269		SRAP、SNP		scaffold31：960134等		[21]
品质相关性状	LIN		269		SRAP、SNP		scaffold86：981127等		[21]
			390		SSR		c729-s156_Lu3262等		[26]
			224		SLAF		scaffold127_813924等		[27]
			260		SNP		Lus10038321等		[28]
	LIO		269		SRAP、SNP		scaffold123：2041205		[21]
			200		SNP		scaffold263：18997188等		[25]
			390		SSR		c729-s156_Lu3262等		[26]
			224		SLAF		Lus10017450		[24]
			224		SLAF		scaffold234_21551等		[27]
			260		SNP		Lus10038321等		[28]
	OIL		269		SRAP、SNP		scaffold196：551524等		[21]
			390		SSR		c31-s67_Lu181		[26]
			260		SNP		Lus10039906等		[28]
	STE		269		SRAP、SNP		scaffold132：133025等		[21]
			390		SSR		c175-s1216_Lu146		[26]
			224		SLAF		scaffold906_578513等		[27]
			260		SNP		Lus10011877等		[28]
		OLE		269		SRAP、SNP		scaffold199：241878等		[21]
				200		SNP		scaffold183：24857444等		[25]
				260		SNP		Lus10006637等		[28]
		PAL		269		SRAP、SNP		scaffold175：581966等		[21]
				224		SLAF		Lus10022606		[24]
				224		SLAF		scaffold947_339645等		[27]
				260		SNP		Lus10028925等		[28]
	IOD		390		SSR		c46-s505_Lu2102		[26]
	IOD		260		SNP		Lus10036184等		[28]
胁迫		PR	370			Lu4-17204590、Lu8-18251174等		[29]
其他		花色	269		SRAP、SNP		scaffold701：840107等		[21]
		花冠形状					scaffold811：44136等
		花药色					scaffold910：31728
		叶色					scaffold211：69126
		叶形					scaffold67：579267等
		MC	200		SNP		Lu5-3808878等		[30]
		HC	200		SNP		Lu7-6577527等		[30]
		木酚素	269		SNP		Lus10038550等		[32]

类别	性状		材料数量		标记		获得的标记位点或候选基因		参考文献
产量相关性状	PH		269		SRAP、SNP		scaffold9：516785等		[21]
			390		SSR		Lu943、Lu316		[22]
			224		SLAF		UGT、PL、Lus10016125等		[23][24]
	TSW		269		SRAP、SNP		scaffold261：57823等		[21]
			390		SSR		Lu2164、Lu2555等		[22]
			224		SLAF		PHO1		[23]
	BN		269		SRAP、SNP		scaffold31：1694349等		[21]
			390		SSR		Lu2067a		[22]
			224		SLAF		GRAS、XTH等		[23]
	CN		269		SRAP、SNP		scaffold462：594151		[21]
	CN		224		SLAF		Contig1437、LU0019C12等		[23]
	FL		269		SRAP、SNP		scaffold123:1933585等		[21]
	SPC		269		SRAP、SNP		scaffold312：72968等		[21]
	SWP		269		SRAP、SNP		scaffold31：960134等		[21]
品质相关性状	LIN		269		SRAP、SNP		scaffold86：981127等		[21]
			390		SSR		c729-s156_Lu3262等		[26]
			224		SLAF		scaffold127_813924等		[27]
			260		SNP		Lus10038321等		[28]
	LIO		269		SRAP、SNP		scaffold123：2041205		[21]
			200		SNP		scaffold263：18997188等		[25]
			390		SSR		c729-s156_Lu3262等		[26]
			224		SLAF		Lus10017450		[24]
			224		SLAF		scaffold234_21551等		[27]
			260		SNP		Lus10038321等		[28]
	OIL		269		SRAP、SNP		scaffold196：551524等		[21]
			390		SSR		c31-s67_Lu181		[26]
			260		SNP		Lus10039906等		[28]
	STE		269		SRAP、SNP		scaffold132：133025等		[21]
			390		SSR		c175-s1216_Lu146		[26]
			224		SLAF		scaffold906_578513等		[27]
			260		SNP		Lus10011877等		[28]
		OLE		269		SRAP、SNP		scaffold199：241878等		[21]
				200		SNP		scaffold183：24857444等		[25]
				260		SNP		Lus10006637等		[28]
		PAL		269		SRAP、SNP		scaffold175：581966等		[21]
				224		SLAF		Lus10022606		[24]
				224		SLAF		scaffold947_339645等		[27]
				260		SNP		Lus10028925等		[28]
	IOD		390		SSR		c46-s505_Lu2102		[26]
	IOD		260		SNP		Lus10036184等		[28]
胁迫		PR	370			Lu4-17204590、Lu8-18251174等		[29]
其他		花色	269		SRAP、SNP		scaffold701：840107等		[21]
		花冠形状					scaffold811：44136等
		花药色					scaffold910：31728
		叶色					scaffold211：69126
		叶形					scaffold67：579267等
		MC	200		SNP		Lu5-3808878等		[30]
		HC	200		SNP		Lu7-6577527等		[30]
		木酚素	269		SNP		Lus10038550等		[32]