Table 1

Pig cDNA libraries, ESTs, and completely sequenced cDNA clones
Library name Method of library construction Tissue/cell Origina Vector ESTs Sequenced cDNA
In contigs In singlets Total Clones Mapped on Sscrofa10.2 Loci
ADR01 Oligo-capping Adrenal gland LWD (LWD2) pCMVFL3 6490 3188 9678 901 861 782
AMP01 SMART Alveolar macrophage LWD (LWD7) pDNR-LIB 5459 3704 9163 1416 1345 930
BFLT1 Oligo-capping Brain (frontal lobe) Duroc (2-14C) pME18S 8104 5678 13,782 991 953 859
BKFL1 SMART Backfat Landrace (L2) pDNR-LIB 1557 7920 9477 453 418 404
BMWN1 Vector-capping Bone marrow NIBS miniature pGCAP10 5981 2492 8473 148 133 124
CBLT1 Vector-capping Cerebellum Duroc (2-14C) pGCAP10 6082 3054 9136 0 0 0
CLNT1 Oligo-capping Colon Duroc (2-14C) pME18S 6580 6782 13,362 537 512 365
DCI01 SMART Immature dendritic cells Landrace (L1) pDNR-LIB 5953 4486 10,439 887 841 748
HTMT1 Vector-capping Hypothalamus Duroc (2-14C) pGCAP10 8063 5278 13,341 1663 1474 1264
ILNT1 Vector-capping Inguinal lymph node Duroc (2-14C) pGCAP10 6321 2658 8979 0 0 0
ITT01 Oligo-capping Intestine LWD (LWD2) pCMVFL3 7272 2475 9747 1265 1206 1037
KDN01 Oligo-capping Kidney LWD (LWD8) pME18S 5873 3235 9108 748 723 663
LNG01 Oligo-capping Lung LWD (LWD3) pCMVFL3 5186 3859 9045 1331 1250 1061
LVR01 Oligo-capping Liver LWD (LWD4) pCMVFL3 7199 1815 9014 779 741 653
LVRM1 Oligo-capping Liver Meishan pCMVFL3 13,881 5051 18,932 1844 1760 1372
MLN01 Oligo-capping Mesenteric lymph node LWD (LWD2) pCMVFL3 6443 3250 9693 1176 1099 902
MLTL1 SMART Longissimus muscle Landrace (L2) pDNR-LIB 3577 4892 8469 413 388 292
OVR01 Oligo-capping Ovary LWD (LWD1) pCMVFL3 6537 2828 9365 1416 1356 1226
OVRM1 Oligo-capping Ovary Meishan pCMVFL3 12,471 7071 19,542 3309 3149 2665
OVRT1 Oligo-capping Ovary Duroc (2-14C) pME18S 9516 4340 13,856 819 790 728
PBL01 Oligo-capping Peripheral blood lymphocytes LWD (LWD5) pCMVFL3 6652 3262 9914 957 908 732
PCT01 Oligo-capping Placenta LWD (LWD9) pME18S 2175 1115 3290 161 150 142
PST01 Oligo-capping Prostate LWD (LWD10) pME18S 6813 2329 9142 691 654 596
PTG01 Oligo-capping Pituitary gland LWD (LWD4) pCMVFL3 4281 5628 9909 864 826 790
SKNB1 Oligo-capping Skin Berkshire pME18S 4894 3363 8257 687 630 534
SMG01 Oligo-capping Submaxillary gland LWD (LWD2) pCMVFL3 6944 2680 9624 458 430 361
SPL01 Oligo-capping Spleen LWD (LWD1) pCMVFL3 6793 2811 9604 1457 1397 1207
SPLT1 Vector-capping Spleen Duroc (2-14C) pGCAP10 6037 2734 8771 0 0 0
TCH01 Oligo-capping Trachea LWD (LWD3) pCMVFL3 5151 3658 8809 1412 1345 1087
TES01 Oligo-capping Testis LWD (LWD6) pME18S 7112 2962 10,074 697 669 466
THY01 Oligo-capping Thymus LWD (LWD1) pCMVFL3 7586 3704 11,290 2158 2066 1620
UTR01 Oligo-capping Uterus LWD (LWD1) pCMVFL3 6796 2626 9422 1441 1356 1180
Total 209,779 120,928 330,707 31,079 29,430 13,894 (2993)b

Thirty-two cDNA libraries constructed with pig tissues and cell populations were used to generate expressed sequence tags (ESTs). Twenty-three libraries were constructed by using the oligo-capping method [21], and five were constructed by using the vector-capping [20] method. Four libraries were constructed by using the SMART method (Clontech, Palo Alto, CA, USA) [22]. ESTs in contigs are shown, as are those that had a ≥100-bp stretch of Phred quality value ≥20 and were not involved in contigs (“In singlets”). Numbers of cDNA clones that were completely sequenced (31,079 in total) are also shown. Completely sequenced cDNA clones derived from pigs cloned from a female subjected to genome sequencing by the International Swine Genome Sequencing Consortium are classified by library.

a Origins are indicated as pig breeds or lines. Different animals in the same breed are designated as described in parentheses. LWD is (Landrace × Large White) × Duroc. Duroc (2-14C) designates a Duroc individual cloned from a female pig subjected to draft genome sequencing [5-7].

b Loci repeated among clones derived from different libraries were removed.

Uenishi et al.

Uenishi et al. BMC Genomics 2012 13:581   doi:10.1186/1471-2164-13-581

Open Data