Table 3 Gene annotation of 19 adaptive outlier loci against the Ciona robusta genome

Cin10

Chromosome 1:

4,135,583-4,136,208

0

no hit

no

Cin19

Chromosome 1:

6,677,358-6,678,040

0

uncharacterized LOC108949898

no

Cin20

Scaffold HT001144.1:

27,547-27,960

0

protein MB21D2 (MB21D2 gene)

protein-containing complex binding; cadherin binding

Cin36

Scaffold HT000030.1:

142,799-143,299

0

no hit

no

Cin59

Scaffold HT000127.1:

84,997-85,135

1.00E-53

uncharacterized LOC104266650

no

Cin66

Chromosome 3:

2,342,118-2,342,780

0

uncharacterized LOC104265511

no

Cin74

Chromosome 3:

5,106,446-5,106,970

0

polyadenylate-binding protein 2 (PABP2 gene)

RNA binding; mRNA polyadenylation;

poly(A) binding; nucleus; cytoplasm

Cin95

Chromosome 5:

3,787,692-3,787,983

6.00E-122

S-phase kinase-associated protein 2 (SKP2 gene)

G1/S transition of mitotic cell cycle;

G2/M transition of mitotic cell cycle;

protein polyubiquitination; protein binding

ubiquitin-protein transferase activity

Cin98

Chromosome 5:

4,569,724-4,570,072

3.00E-170

low-density lipoprotein receptor-related protein 6 (LRP6 gene)

negative regulation of protein phosphorylation;

low-density lipoprotein particle receptor activity;

signaling receptor binding; frizzled binding; protein binding

Cin106

Chromosome 6:

1,498,836-1,499,402

0

inositol polyphosphate 5-phosphatase OCRL-1 (OCRL gene)

GTPase activator activity; in utero embryonic development;

photoreceptor outer segment;

phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity;

trans-Golgi network; signal transduction; nucleus; clathrin-coated vesicle

Cin138

Chromosome 1:

1,567,428-1,567,684

6.00E-88

no hit

no

Cin153

Scaffold HT000103.1:

128,876-129,440

0

IST1 homolog (IST1 gene)

protein binding

Cin162

Chromosome 9:

4,578,790-4,579,144

2.00E-152

mitochondrial uncoupling protein 3 (UCP3 gene)

response to cold; adaptive thermogenesis; response to nutrient;

lipid metabolic process; fatty acid metabolic process; aging;

response to superoxide; response to hypoxia; respiratory gaseous exchange;

oxidative phosphorylation uncouple activity; mitochondrial inner;

transporter activity membrane

Cin182

Chromosome 12:

1,101,323-1,101,594

2.00E-94

no hit

no

Cin189

Chromosome 13:

1,255,212-1,255,526

6.00E-144

no hit

no

Cin193

Chromosome 14:

244,529-244,945

0

histone acetyltransferase p300 (EP300 gene)

negative regulation of transcription by RNA polymerase II;

response to hypoxia; somitogenesis;

stimulatory C-type lectin receptor signaling pathway;

RNA polymerase II activating transcription factor binding;

RNA polymerase II proximal promoter sequence-specific DNA binding;

p53 binding; histone acetyltransferase complex

Cin211

Chromosome 5:

2,499,390-2,499,700

8.00E-126

AP-3 complex subunit mu-1

(AP3M1 gene)

anterograde axonal transport; anterograde synaptic vesicle transport

Cin225

Chromosome 10:

293,070-293,590

0

persulfide dioxygenase ETHE1 (ETHE1 gene)

glutathione metabolic process; hydrogen sulfide metabolic process;

oxidation-reduction process; sulfur dioxygenase activity;

iron ion binding; mitochondrion; nucleoplasm

Cin229

Scaffold HT000276.1:

9605-10,133

0

no hit

No