Decrease of gene expression diversity during domestication of animals and plants

Table 1 Summary of all the transcriptome data

Species	Type	Breed	Sample size	Tissue	Data sources
Rice	Dome	Oryza sativa indica	9	panicle	This study
	Dome	Oryza sativa japonica	11	panicle
	Wild	Oryza nivara	10	panicle
	Wild	Oryza rufipogon	10	panicle
Soybean	Improved	Glycine max	11	stem apical meristems	This study
	Landrace	Glycine max	14	stem apical meristems
	Wild	Glycine soja	10	stem apical meristems
Maize ear	Dome	Maize	12	ear	[29]
Maize ear	Wild	Teosinte	18	ear
Maize leaf	Dome	Maize	12	leaf
Maize leaf	Wild	Teosinte	17	leaf
Maize stem	Dome	Maize	12	stem
Maize stem	Wild	Teosinte	17	stem
Cotton	Dome	Gossypium hirsutum	40	leaf	[28]
Cotton	Wild		10	leaf	[28]
Silkworm	Dome	Bombyx mori (trimolter)	4	silk gland	This study
Silkworm	Wild	Bombyx mandarina	4	silk gland	This study
Dog	Dome	Dog	5	brain frontal cortexes	[22]
Dog	Wild	Grey wolf	6	brain frontal cortexes	[22]
Chicken	Dome	Avian broiler	5	gastrocnemius	[21]
Chicken	Wild	Red junglefowl	4	gastrocnemius	[21]

Dome represents the domestic species, while wild represents the wild progenitor species. Panicles of rice samples, stem apical meristems of soybeans and silk glands of silkworms were sequenced by us. The domestic silkworm samples were from four trimolter silkworm breeds (Additional file 1: Table S3). A few of the samples which had lower mapping depths were discarded in the following analysis (Additional file 2: Table S8)

ISSN: 2730-7182