Potamogale velox




Дата канвертавання19.04.2016
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Table S1. Overlap in base pairs between amplified fragments, excluding primers. If the overlapping region is unique to a species it is labeled “d” for diagnostic; in cases when two or more species are identical for an overlapping region, it is denoted “n” for non-diagnostic. In cases when a fragment was determined from more than one primer pair, the longer overlap was used at each end, as the extensive overlap between alternative PCR products for one fragment always resulted in highly diagnostic overlap between such alternative fragments (see also Fig. 3)


Species


1/2

2/3

3/4

4/5

5/6

6/7

Potamogale velox

/

53 d

None (6 bp gap)

13 n

62 d

59 d

Limnogale mergulus


45 d

10 n

126 d

14 n

114 d

52 d

Geogale aurita


45 d

10 n

126 d

14 n

78 d

59 d

Micropotamogale lamottei


/

1 d

53 d

13 n

62 d

59 d

Hemicentetes semispinosus


19 n

43 d

64 d

14 n

66 d

14 n

Setifer setosus


19 n

43 d

64 d

14 n

66 d

14 n

Table S2. Results obtained in BLAST searches for each fragment.

Taxon

Fragment

Blast result, fragment length

Potamogale velox

F2a / R2g 201 (150)

Trichechus manatus growth hormone receptor 132/150

Tenrec ecaudatus growth hormone receptor 132/150

Cynocephalus volans growth hormone receptor 132/150

Orycteropus afer growth hormone receptor 132/150

Canis familiaris growth hormone receptor precursor 132/150

Procavia capensis growth hormone receptor 132/150



Potamogale velox

F3 / R3 200 (167)

Trichechus manatus growth hormone receptor 147/167

Elephas maximus growth hormone receptor 148/167

Orycteropus afer growth hormone receptor 148/167

Loxodonta africana growth hormone receptor 147/167

Chrysospalax trevelyani growth hormone receptor 146/167

Tenrec ecaudatus growth hormone receptor 144/167



Potamogale velox

F4.1g / R4.1s 175 (127)

Trichechus manatus growth hormone receptor 113/127

Tenrec ecaudatus growth hormone receptor 111/127



Potamogale velox

F4gapG / R4gap1 73 (32)

Tenrec ecaudatus growth hormone receptor 29/32

Batomys granti growth hormone receptor 29/32

Procavia capensis growth hormone receptor 29/32

Trichechus manatus growth hormone receptor 29/32



Potamogale velox

F5g / R5g 223 (178)

Elephas maximus growth hormone receptor 155/178

Tenrec ecaudatus growth hormone receptor 154/178



Potamogale velox

F6g / R6g 205 (161)

Microgale talazaci growth hormone receptor 141/161

Potamogale velox

F7gap / R7shorta 195 (160)

Tenrec ecaudatus growth hormone receptor 141/158 (last two missing in GenBank)

Limnogale mergulus

F1g / R1g 181 (130)

Oryzorictes talpoides growth hormone receptor 125/130

Microgale talazaci growth hormone receptor 122/128 (first two bases missing in GenBank)




Limnogale mergulus

F2 / R2 199 (150)


Microgale talazaci growth hormone receptor 145/150


Limnogale mergulus

F2a / R2g 201 (150)



Microgale talazaci growth hormone receptor 145/150

Limnogale mergulus

F3g / R3g 225 (183)



Microgale talazaci growth hormone receptor 170/183

Limnogale mergulus

F4 / R4 217 (172)



Microgale talazaci growth hormone receptor 160/172

Limnogale mergulus

F5 / R5gap 264 (223)

Echinops telfairi growth hormone receptor 215/223

Limnogale mergulus

F6g / R6g 205 (161)

Microgale talazaci growth hormone receptor 154/161

Limnogale mergulus

F6 / R6 206 (166)

Echinops telfairi growth hormone receptor 160/166

Limnogale mergulus

F7 / R7 189 (151)

Microgale talazaci growth hormone receptor 143/151

Geogale aurita

F1g / R1g 181 (130)

Oryzorictes talpoides growth hormone receptor 123/130

Microgale talazaci growth hormone receptor 118/128(first two bases missing in GenBank)



Geogale aurita

F2 / R2 199 (150)

Oryzorictes talpoides growth hormone receptor 142/150

Tenrec ecaudatus growth hormone receptor 138/150



Geogale aurita

F2a / R2g 201 (150)

Oryzorictes talpoides growth hormone receptor 142/150

Tenrec ecaudatus growth hormone receptor 138/150



Geogale aurita

F3g / R3g 225 (180)

Tenrec ecaudatus growth hormone receptor 161/180

Geogale aurita

F4 / R4 217 (169)

Tenrec ecaudatus growth hormone receptor 155/169

Geogale aurita

F5 / R5gap 264 (223)

Microgale talazaci growth hormone receptor 205/223

Geogale aurita

F6g / R6g 205 (161)

Microgale talazaci growth hormone receptor 147/161

Geogale aurita

F7gap / R7 195

Echinops telfairi growth hormone receptor 143/158

Micropotamogale lamottei

F2g / R2 209 (163)

Chrysospalax trevelyani growth hormone receptor 153/168 (3 bp gap)

Orycteropus afer growth hormone receptor 148/163

Trichechus manatus growth hormone receptor 148/163

Oryzorictes talpoides growth hormone receptor 146/163

Tenrec ecaudatus growth hormone receptor 145/163


Micropotamogale lamottei

F3g / R3g 225 (183)

Trichechus manatus growth hormone receptor 155/183

Elephas maximus growth hormone receptor 154/183

Loxodonta africana growth hormone receptor 154/183

Oryzorictes talpoides growth hormone receptor 151/183

Tenrec ecaudatus growth hormone receptor 150/183

Orycteropus afer growth hormone receptor 150/183

Microgale talazaci growth hormone receptor 148/183


Micropotamogale lamottei

F4.1g / R4.1s 175 (127)

Trichechus manatus growth hormone receptor 117/127

Equus caballus growth hormone receptor 117/127

Tenrec ecaudatus growth hormone receptor 115/127


Micropotamogale lamottei

F4gapG / R4gap1 73 (32)

Tenrec ecaudatus growth hormone receptor 31/32

Procavia capensis growth hormone receptor 31/32

Trichechus manatus growth hormone receptor 31/32


Micropotamogale lamottei

F5g / R5g 223 (178)

Elephas maximus growth hormone receptor 156/178

Loxodonta africana growth hormone receptor 156/178

Oryzorictes talpoides growth hormone receptor 153/178


Micropotamogale lamottei

F6g / R6g 205 (161)

Elephas maximus growth hormone receptor 142/161

Loxodonta africana growth hormone receptor 142/161

Tenrec ecaudatus growth hormone receptor 141/161


Micropotamogale lamottei

F7gap / R7 195 (158)

Tenrec ecaudatus growth hormone receptor 147/158

Hemicentetes semispinosus

F1g / R1gap 147 (104)

Echinops telfairi growth hormone receptor 98/102 (first two bases missing in GenBank)

Tenrec ecaudatus growth hormone receptor 98/102 (first two bases missing in GenBank)



Hemicentetes semispinosus

F2 / R2 199 (150)

Tenrec ecaudatus growth hormone receptor 142/150

Echinops telfairi growth hormone receptor 142/150



Hemicentetes semispinosus

F3 / R3 200 (164)

Tenrec ecaudatus growth hormone receptor 156/164

Hemicentetes semispinosus

F4 / R4 217 (169)

Echinops telfairi growth hormone receptor 168/169

Hemicentetes semispinosus

F5 / R5gap 264 (217)

Echinops telfairi growth hormone receptor 210/223 (6 bp gap)

Hemicentetes semispinosus

F5g / R5g 223 (172)

Echinops telfairi growth hormone receptor 166/172

Hemicentetes semispinosus

F6gap / R6gap 150 (105 + 6 bp gaps)

Echinops telfairi growth hormone receptor 102/111

Hemicentetes semispinosus

F7 / R7 189 (151)

Echinops telfairi growth hormone receptor 147/151

Setifer setosus

F1g / R1gap 147 (104)

Echinops telfairi growth hormone receptor 100/102 (first two bases missing in GenBank)

Setifer setosus

F2 / R2 199 (150)

Echinops telfairi growth hormone receptor 149/150

Setifer setosus

F3 / R3 200 (164)

Echinops telfairi growth hormone receptor 162/164

Setifer setosus

F4 / R4 217 (169)

Tenrec ecaudatus growth hormone receptor 165/169

Setifer setosus

F5 / R5gap 264 (223)

Echinops telfairi growth hormone receptor 222/223

Setifer setosus

F5g / R5g 223 (178)

Echinops telfairi growth hormone receptor 178/178

Setifer setosus

F6gap / R6gap 150 (111)

Echinops telfairi growth hormone receptor 110/111

Setifer setosus

F7 / R7 189 (151)

Echinops telfairi growth hormone receptor 151/151

Table S3. Alignment alternatives (number of parsimony informative sites listed in parentheses in first row). Full alignments have been provided to the editor and will be placed online upon publication. Autapomorphic insertions were deleted in aligns 1 and 3. Numbers in parentheses represent approximate position in respective alignment file. Each row represents a putatively homologous region of GHR. Asterisks indicate autapomorphic indels.


Align1 (514)

Align2 (514)

Align3 (521)

Align4 (516)




(83*)

mus GATGTGGATG

myotis GAT------G





(83*)

mus GATGTGGATG

myotis GAT------G


(228*)

Cavia AT---------GA

Chryso GTGACATGTGTGA


(241*)

Cavia C------------A

Chrys GTGTGATGATGGTA

Croci ATGTGATGGT---A



(228*)

Cavi AT---------GA

Chry GTGACATGTGTGA


(238*)

Cavia T---------G

Chryso CATGTGTGATG











(248*)

Chryso GATGGTACC

Crocid GGT---ACC





(266*)

Sorex GCTCCAGCA

Suncus GAG---CAG





(266*)

Sorex GCTCCAGCA

Suncus GAG---CAG


(299)

Crocid CTT---GAG

Echino CTTGACCAG

Suncus CTT---GAG



(314)

Crocid GAG---AAG

Echino GACCAGAAG

Suncus GAG---AAG



(299)

Crocid CTT---GAG

Echino CTTGACCAG

Suncus CTT---GAG



(314)

Crocid GAG---AAG

Echino GACCAGAAG

Suncus GAG---AAG



(323)

Monodel -----GC

Artibeu TGCCTTT

Cavia CA---CC

Elephan TG---CC

Mus TG---CC

Parasca CA---CC

Rattus CG---CC



(332)

Monodel TCC---CCC

Artibeu AACCTGCCT

Elephan TCA---CTG

Mus AAC---TTG

Parasca AAC---TCA

Rattus AAC---TCG


(323)

Monodel CCTCGAC

Cavia CA---CC

Elephan TG---CC

Mus TG---CC

Parasca CA---CC

Rattus CG---CC


(332)

Monodel TCC---CCC

Artibeu AACCTGCCT

Elephan TCA---CTG

Mus AAC---TTG

Parasca AAC---TCA

Rattus AAC---TCG


(342*)

Elephan GT---------

Elephas CCCCTGCTACT


(352)

Mono T------------CC

Cavi T---CCTGATCCTCA

Elep A---------GGTCA



(342)

Monod C-----------

Artib CCCTGCTACTCA

Eleph T---------CA



(352)

Monodel T---CCACCCA

Cavia T---CCTGATC

Elephan A---------G



(357*)

Monodel AC---GG

Artibeu AGCCCGG








(364*)

Monodel C---------G

Artibeu TCAGGAGCCCG





(383*)

Mus CAGACAG

Myotis CT---AG





(383*)

Mus CAGACAG

Myotis CT---AG


(402)

Echinop TT---GG

Echinos TGATTGG

Geogale TT---GG

Hemicen TT---GG

Myrmeco TT---GG

Pteropu TT---GG

Setifer TT---GG

Tenrec CT---GG


(417)

Echin TT---GGTGGATC

Ensrx TGATTGGTGGAAC

Eleph TT---------AT

Geoga TT---GGTGAATC

Hemic TT---GGTGGATC

Myrme TT---GGTGGAAC

Potam TT------AATGG

Ptero TT---GGTGGAAC

Setif TT---GGTGGATC

Tenre CT---GGTGGATC


(402)

Echin T---GGTGGAT

Echin GATTGGTGGAA

Eleph T---------A

Geoga T---GGTGAAT

Hemic T---GGTGGAT

Myrme T---GGTGGAA

Potam T------AATG

Ptero T---GGTGGAA

Setif T---GGTGGAT

Tenre T---GGTGGAT


(417)

Echinop TT---GG

Echinos TGATTGG

Geogale TT---GG

Hemicen TT---GG

Myrmeco TT---GG

Pteropu TT---GG

Setifer TT---GG

Tenrec CT---GG


(408*)

Potamog GT------GA

Procavi GTGGAATTGA








(423*)

Potamog GT------GA

Procavi GTGGAATTGA


(429*)

Elephan AA---------G

Elephas AAGCTGCCCATA








(444*)

Elephan TC---------AA

Elephas TCAAGCTGCCCAT


(447*)

Artibeu TAAGCAA

Blarina CA---AA


(462*)

Artibeu TAAGCAA

Blarina CA---AA


(447*)

Artibeu TAAGCAA

Blarina CA---AA


(462*)

Artibeu TAAGCAA

Blarina CA---AA





(589*)

Bl GGGCAGAAGTGATTTCA

Bo C---------------C





(589*)

Blar GGGCAGAAGTGATTTCA

Bos C---------------C


(579)

Mondel AA---GC

Artibe AAGCGGT

Cavia AA-----



(613)

Monodel C---TC

Artibeu GGTCTC

Cavia A-----



(579)

Mondel AA---GC

Artibe AAGCGGT

Cavia AA-----



(613)

Monodel C---TC

Artibeu GGTCTC

Cavia A-----



(695*)

Geomys ACACTTTA

Hemice G------A


(730*)

Geomys CTTTAACC

Hemice C------C


(695*)

Geomys ACACTTTA

Hemice G------A


(730*)

Geomys CTTTAACC

Hemice C------C


(764)

Elephan CCA---GAA

Elephas GCAGCAGAA

Pteropu ACA---GAA



(794)

Elephan CCA---GAA

Elephas GCAGCAGAA

Pteropu ACA---GAA



(764)

Elephan CCA---GAA

Elephas GCAGCAGAA

Pteropu ACA---GAA



(794)

Elephan CCA---GAA

Elephas GCAGCAGAA

Pteropu ACA---GAA



(789*)

Pteropus AGATACC

Rattus AG---CC


(819*)

Pteropus AGATACC

Rattus AG---CC


(789*)

Pteropus AGATACC

Rattus AG---CC


(819*)

Pteropus AGATACC

Rattus AG---CC





(903*)

Parascal CCTTGCCTGA

Potamoga CT------GA





(903*)

Parascal CCTTGCCTGA

Potamoga CT------GA


(882)

Mus AGAATTT

Myotis AG---TT

Rattus AGAAGTT



(918)

Mus AGAATTT

Myotis AG---TT

Rattus AGAAGTT



(882)

Mus AGAATTT

Myotis AG---TT

Rattus AGAAGTT



(918)

Mus AGAATTT

Myotis AG---TT

Rattus AGAAGTT




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