Supplementary

Table 1: Details of 108 microsatellite loci developed from species of Cyprinidae (Subfamilies: Leuciscinae, Cyprininae and Barbinae) tested in Cirrhinus mrigala, Catla catla and L.rohita and other seven species of subfamily cyprininae from previous study.

Resource species / Subfamily / Locus / Gene bank Accession no. / Test Species
CM / CC / LR / LK# / LB / LDU / LD / LDR / TP / GCU / Mono / Poly / T
Labeo rohita
[39,40,41] / Subfamily-
Cyprininae / Lr 27 / AM231176 / ap / a / a / a / ap / 3 / 2 / 5
Lr 28 / AM231177 / ap / a / ap / ap / ap / 1 / 4 / 5
Lr 29 / AM231178 / ap / - / a / ap / 1 / 2 / 3
Lr 30 / AM231179 / a / a / a / - / ap / 3 / 1 / 4
Lr 32 / AM231181 / - / HMW / a / ap / 2 / 1 / 3
Lr 35 / AM269525 / ap / ap / a / - / ap / 1 / 3 / 4
Lr 36 / AM269526 / ap / ap / a / ap / 1 / 3 / 4
Lr 37 / AM269527 / ap / ap / ap / - / 3 / 3
Lr 38 / - / - / a / ap / 1 / 1 / 2
Lr41 / AM269531 / - / - / ap / - / ap / 2 / 2
Lr 44 / AM269534 / - / - / a / a / 2 / 2
Lr 45 / AM269535 / - / ap / ap / ap / 3 / 3
Lr 46 / AM269536 / - / - / a / - / ap / 1 / 1 / 2
Lro12 / AM184136 / - / - / ap / - / 1 / 1
Lro14 / AM184163 / - / ap / ap / a / 1 / 2 / 3
Lro23 / AM184142 / a / HMW / ap / ap / 1 / 2 / 3
Lro25 / AM184143 / - / ap / ap / ap / 3 / 3
Lro26 / AM184144 / ap / a / a / a / 3 / 1 / 4
Lro29 / AM184145 / - / - / a / - / 1 / 1
Lro30 / AM184146 / - / - / a / a / 2 / 2
Lro31 / AM184147 / a / ap / ap / a / 2 / 2 / 4
Lro32 / AM184148 / ap / a / a / 2 / 1 / 3
Lro33 / AM184149 / a / ap / ap / - / 1 / 2 / 3
Lro34 / AM184150 / ap / - / ap / - / 2 / 2
Lro35 / AM184151 / - / ap / a / - / 1 / 1 / 2
Lro36 / AM184152 / ap / MB / a / - / 1 / 1 / 2
Lro37 / AM184153 / a / ap / ap / - / 1 / 2 / 3
Lro39 / AM184154 / ap / a / a / a / 3 / 1 / 4
Lro40 / AM184155 / ap / a / a / - / 2 / 1 / 3
Lro41 / AM184156 / ap / a / a / - / 2 / 1 / 3
Lro43 / AM184158 / - / ap / ap / - / 2 / 2
Lro44 / AM184162 / ap / a / ap / ap / 1 / 3 / 4
Lro47 / AM184159 / HMW / HMW / a / - / 1 / - / 1
Lro49 / AM184160 / ap / a / ap / - / 1 / 2 / 3
Lro50 / AM184161 / - / ap / a / ap / 1 / 2 / 3
R 1 / AJ507518 / - / ap / ap / ap / ap / 4 / 4
R 2 / AJ507519 / - / - / - / -
R 3-1 / ap / 1 / 1
R 3 / AJ507520 / ap / a / a / ap / ap / 2 / 3 / 5
R 5 / AJ507521 / - / - / - / HMW / - / -
R 6 / AJ507522 / a / - / - / a / ap / 2 / 1 / 3
R 12 / AJ507524 / ap / ap / ap / ap / ap / 5 / 5
Cyprinus carpio
[35] / Subfamily-
Cyprininae / MFW 1 / ap / ap / ap / ap / ap / ap / ap / 7 / 7
MFW 2 / ap / - / - / a / ap / 1 / 2 / 3
MFW 9 / a / a / a / a / ap / 4 / 1 / 5
MFW 11 / a / ap / a / ap / ap / ap / 2 / 4 / 6
MFW 14 / - / - / - / - / -
MFW 15 / a / a / ap / a / ap / ap / 3 / 3 / 6
MFW 17 / ap / a / a / a / ap / ap / ap / 3 / 4 / 7
MFW 19 / a / a / a / a / ap / ap / ap / 4 / 3 / 7
MFW 20 / ap / a / a / a / 3 / 1 / 4
MFW 23 / - / - / - / - / -
MFW 24 / a / a / a / a / ap / ap / 4 / 2 / 6
MFW 26 / a / a / a / a / ap / ap / ap / ap / 4 / 4 / 8
Cca 80 / AY169250 / - / - / - / - / -
Cca 72 / AY169249 / - / - / - / - / -
Catla catla
[42] / Subfamily-
Cyprininae / CC A12 / AF045378 / - / ap / - / 1 / 1
C3 / AF045380 / MB / ap / a / - / 1 / 1 / 2
G1 / AF045381 / MB / ap / a / - / ap / ap / 1 / 3 / 4
G2 / AF045382 / - / ap / a / - / 1 / 1 / 2
CC A 54 / - / a / a / - / 2 / 2
CC A 57 / - / ap / - / - / 1 / 1
Cc 7 / AJ294955 / a / ap / - / - / 1 / 1 / 2
Cc 11 / AJ294959 / a / a / - / ap / 2 / 1 / 3
CC A 59 / a / ap / a / - / 2 / 1 / 3
CC A 60 / - / a / ap / - / 1 / 1 / 2
Carassius auratus
[43] / Subfamily-
Cyprininae / J1, 2, 7, 9, 12, 20, 50, 58, 60, 68, 69 / AY115092-93, 95-97, 99, 102-106. / - / - / - / -
Barbodes gonionotus
[44] / Subfamily-
Cyprininae / Bgon 17 / ap / 1 / 1
Bgon 22 / ap / ap / ap / ap / 4 / 4
Bgon 80 / ap / a / a / a / 3 / 1 / 4
Bgon 81 / - / - / - / - / -
Bgon 82 / - / - / - / - / -
Bgon 83 / - / - / - / - / -
Bgon 84 / a / - / - / a / 2 / 2
Barbus barbus
[45] / Subfamily- Barbinae / Barb 37 / - / - / - / - / ap / ap / 2 / 2
Barb 54 / ap / a / a / - / 2 / 2 / 4
Barb 59 / - / - / - / - / ap / 1 / 1
Barb 62 / - / - / - / - / ap / 1 / 1
Barb 79 / - / - / - / - / -
Campostoma anomalum
[46] / Subfamily-
Leuciscinae / Ca3, 5, 6, 8, 10, 11, 15, 17 / AF277575 , AF277577, 78, AF277580, AF277582-84, AF277587- AF277589 / - / - / - / - / -
Ca12 / AF277584 / a / a / - / a / ap / ap / 3 / 2 / 5
Ca16 / - / - / - / HMW
Pimphales promelas
[47] / Subfamily-
Leuciscinae / Ppro 48, 118, 132, 168 / AY254350, AY254352, AY254354,
AY254356 / - / - / - / - / -
Ppro 80 / AY254351 / - / - / - / a / 1 / 1
Ppro 126 / AY254353 / - / - / - / a / 1 / 1
Ppro 171 / AY254357 / - / - / - / - / -
Pogonichthys macrolepidotus,
Ptychocheilus grandis,
Siphateles
bicolour mohavensis
[48] / Subfamily-
Leuciscinae / CypG 2 / AY439121 / - / - / - / - / -
CypG 3 / AY439122 / - / - / - / -
CypG 5 / AY439124 / - / - / - / -
CypG 6 / AY439125 / - / - / - / -
CypG 8 / AY439126 / - / - / - / -
BGO-80 / ap / 1
BGO-84 / ap / 1
Total identified microsatellite loci (Polymorphic) in each species / 23
(15 new identified) / 23
(12 new identified) / 20
(15 new identified) / 16 / 06 / 06 / 13 / 09 / 07 / 06 / 90 / 152* / 226

CM, Cirrhinus mrigala; CC, Catla catla; LR, Labeo rohita; LK, Labeo calbasu; LB, Labeo bata; LDU, Labeo dussumieri; LD, Labeo dyocheilus; LDR, Labeo dero; TP, Tor putitora; GCU, G. curmuca; No amplification, (-); Monomorphic band, (+); Polymorphic band, (+*); HMW, High molecular weight; MB, Multiple Bands; #, from published data Singh et. al. 2008 (29); LB From published data APatel et al., 2010 [41]

*Include Lr03, Lr10 Lr12, Lr14b, Lr21, Lr23, Lr24, Lr26, Lr31, Lr34 – Analyzed in L.bata and were polymorphic. These loci were not analyzed in CM, CC, LR.