International Journal of Plant Genomics

Review Article

Recent Advances in Cotton Genomics

Table 5

Summary of cotton ESTs (as of May 2007).


Genotypes	Library name	Tissues used	No. of ESTs	No. of unigenes	Authors	References

Gossypium arboreum (A₂):						[100]
AKA8401	GA-Ea	7- to 10-dpa fibers	46,603		Wing et al.
AKA8401	GA-Ea	(normalized)	46,603		Arpat et al.
	Subtotal		46,603	13,947

G. Raimondii (D₅):
GN34	GR_Ea	Whole seedlings	33,671		Udall et al.
GN34	GR_Ea	with 1st true leaves	33,671		Udall et al.
GN34	GR-Eb	-dpa buds to	33,061		Udall et al.
GN34	GR-Eb	-dpa bolls	33,061		Udall et al.
	Subtotal		68,732

G. hirsutum (AD₁):
Coker 312	GH_MD	8- to 10-dpa boll	1,144		Allen	[101]
Coker 312	GH_MD	(irrigated)	1,144		Allen
Coker 312	GH_MDDS	8- to 10-dpa boll	1,238		Allen
Coker 312	GH_MDDS	(drought stressed)	1,238		Allen
Coker 312	GH_LDI	15- to 20-dpa boll	1,799		Allen & Payton
Coker 312	GH_LDI	(irrigated)	1,799		Allen & Payton
Coker 312	GH_LDDI	15- to 20-dpa boll	1,409		Allen & Payton
Coker 312	GH_LDDI	(drought stressed)	1,409		Allen & Payton
Acala Maxxa	GH_BNL	5-dpa fibers	8,022		Blewitt & Burr
Xu-142	GH_FOX	0- to 5-dpa ovule and	7,997		Gou & Chen
Xu-142	GH_FOX	1- to 22-dpa fibers	7,997		Gou & Chen
Deltapine 90	GH_SCW	2nd versus 1st primary	7,385		Haigler &
Deltapine 90	GH_SCW	fibers	7,385		Wilkerson
Zhongmian 12	GH_SUO	0-dpa ovules	1,240		Suo & Xue
Deltapine 16	GH-CHX	- to 0-dpa ovules	7,631		Wu & Dennis
Deltapine 16	GH_OCF	0-dpa ovules	867		Wu and Dennis
Deltapine 16	GH_ON	0-dpa ovules	5,903		Wu & Dennis
Deltapine 16	GH_ON	(normalized)	5,903		Wu & Dennis
Stv 7A gl	GH_ECT	18 h etiolated seedlings	2,880		Chapman
Delta emerald	GH_CRH	Root and hypocotyls	1,464		Dowd & McFadden
Delta emerald	GH_CFUS	RH tissues infected with	820		Dowd &
Delta emerald	GH_CFUS	Fusarium oxysporum	820		McFadden
Sicot	GH_LSL	S9i leaves, late season	1,810		Faivre-Nitschke
Sicot	GH_LSL	S9i leaves, late season	1,810		& Dennis
Coker 312	GH_SDL	Seedlings (control)	1,918		Klueva et al.
Coker 312	GH_SDLD	Seedlings (drought	1,142		Klueva & Nguyen
Coker 312	GH_SDLD	stressed)	1,142		Klueva & Nguyen
Coker 312	GH_SDCH	Seedling (chilling	576		Klueva & Nguyen
Coker 312	GH_SDCH	stressed)	576		Klueva & Nguyen
Deltapine 16	GH_IME	Immature embryo	1,536		Liu & Dennis
Im216	GH_IMX	Leaf 8, 14, 20, 30, 45,	1,134		Patil et al.
Im216	GH_IMX	60 hpi Xanthomonas	1,134		Patil et al.
AcB4Blnb7	GH_ACXE	Leaf hpi	647		Phillips et al.
AcB4Blnb7	GH_ACXE	Xanthomonas	647		Phillips et al.
AcB4Blnb7	GH_ACXM	Leaf hpi	1,328		Phillips et al.
AcB4Blnb7	GH_ACXM	Xanthomonas	1,328		Phillips et al.
AcB4Blnb7	GH_ACXL	Leaf hpi	862		Phillips et al.
AcB4Blnb7	GH_ACXL	Xanthomonas	862		Phillips et al.
T25	GH_pAR	Leaves	1,230		Trolinder
DES119	GH_STEM	Mature stem	8,643		Taliercio
DP62	GH_ECOT	Etiolated cotyledon	2,772		Ni & Trelease
91-D-92	GH_CBAZ	Ball abscission zone	1,306		Wan & Wing
			185,198	51,107		[102]
Texas Marker-1	GH_TMO	- to 3-dpa ovules	32,789	8,540	Chen	[103]
(TM-1)	Not available	5- to 10-dpa fibers	29,992	12,992	Zhu
Xuzhou 142						[104]
(Xu-142)
	Subtotal		132,644

	Total		247,979

The number was the sum of numbers of all ESTs above the line including those of G. arboreum, G. raimondii and G. hirsutum [102]. Of the 247,979 cotton ESTs, 187,014 (75.4%) were from developing fibers or ovules whereas 160,965 (24.6%) from nonfiber or nonovule organs.