Genetic diversity, linkage disequilibrium, and population structure analysis of the tea plant (Camellia sinensis) from an origin center, Guizhou plateau, using genome-wide SNPs developed by genotyping-by-sequencing

Table 2 Genetic diversity parameters of 415 tea accessions in Guizhou Plateau

	Group	Number of tested tea accessions			PPL	GD	Ho	PIC
	Group	Cultivation Type	Wild Type	Total	PPL	GD	Ho	PIC
Region	Ia	106	62	168	0.302(0.007)	0.262(0.003)	0.273(0.004)	0.218(0.002)
	Ib	42	9	51	0.286(0.009)	0.249(0.004)	0.235(0.004)	0.207(0.002)
	Ic	19	38	57	0.258(0.009)	0.239(0.003)	0.231(0.004)	0.199(0.003)
	II	57	26	83	0.276(0.007)	0.250(0.003)	0.237(0.004)	0.208(0.002)
	III	19	22	41	0.267(0.010)	0.230(0.004)	0.209(0.004)	0.192(0.002)
	IV	7	3	10	0.291(0.013)	0.230(0.004)	0.222(0.004)	0.188(0.003)
Growth habits	Cultivation Type	–	–	255	0.298(0.004)	0.253(0.003)	0.259(0.004)	0.210(0.002)
	Wild Type	–	–	160	0.264(0.006)	0.225(0.003)	0.229(0.004)	0.190(0.002)
	Total	–	–	415	2.000(0.000)	0.257(0.003)	0.247(0.004)	0.214(0.002)

PPL The percentage of polymorphic loci, GD Genetic diversity, Ho Observed heterozygosity, PIC Polymorphism information content, Pure Wild Type, Admixed Wild Type and Pure Cultivation Type were groups based on STRUCTURE at K = 2 using 415 tea accessions
Ia Area with a good suitable climate for tea plant growth in North, Guizhou, Ib Area with a good suitable climate for tea plant growth in East, Guizhou, Ic Area with a good suitable climate for tea plant growth in South, Guizhou; II, Area with a suitable climate for tea plant growth in center, Guizhou; III, Area with a minor suitable climate for tea plant growth in West, Guizhou; IV, Area with an unsuitable climate for tea plant growth in West, Guizhou

ISSN: 1471-2229