Sex-biased gene expression and sequence conservation in Atlantic and Pacific salmon lice (Lepeophtheirus salmonis)

Poley, Jordan D.; Sutherland, Ben J. G.; Jones, Simon R. M.; Koop, Ben F.; Fast, Mark D.

doi:10.1186/s12864-016-2835-7

Table 3 Transcripts linked to male reproduction based on expression profiles and annotation

From: Sex-biased gene expression and sequence conservation in Atlantic and Pacific salmon lice (Lepeophtheirus salmonis)

Functional category	Transcript description	Degree of Male-bias (FC)	Probes	SwissProt Accession	CDD Accession	Ref
Protease inhibitors	Keratin-associated protein 6-2	30.8 - 277.1	C088R043	O08884	smart00131	[95, 96]
	Kunitz_BPTI	MS	C084R101	NA	smart00131	[69, 95–100]
	Kunitz_BPTI	MS	C057R056	NA	smart00131
	Kunitz_BPTI	MS	C259R083	NA	pfam00014
	Kunitz/BPTI-like toxin^a	MS	C259R052	B5L5M7	pfam00014
	Papilin^a	MS	C063R028	Q868Z9	pfam00014	[101]
	Papilin^a	MS	C183R014
	Papilin^a	MS	C066R049
	Papilin^a	MS	C142R005
	Tissue factor pathway inhibitor 2^a	MS	C213R048	O35536	pfam00014	[100, 102]
	Antichymotrypsin-2^a	2.9 - 4.2	C077R006	P80034	cd00172	[59, 95, 96, 101, 103]
	SERine Proteinase INhibitors (serpins)	MS	C215R048	NA	cd00172
	Serpin-Z10	1.6 - 2.4	C182R015	Q9SIR9	cd00172
Kinases	Adenylate kinase isoenzyme 1	2.1 - 10.4	C104R155	P05081	TIGR01360	[96, 104]
	Adenylate kinase isoenzyme 1	1.9 – 4.8	C153R147	P00571	TIGR01360
	Adenylate kinase isoenzyme 1	2.1 - 7.1	C031R080	P00571	TIGR01360
	Casein kinase I isoform alpha	MS	C070R100	P97633	cd14016	[96, 105]
	Casein kinase I isoform epsilon	1.8 - 4.8	C244R145	Q9JMK2	cd00180	[96, 105]
	Hexokinase type 2	2.5 - 7.9	C066R139	Q9NFT7	COG5026	[95, 106]
	Probable adenylate kinase isoenzyme F38B2.4	1.9 - 5.7	C212R032	Q20140	TIGR01360	[96, 104]
	Probable adenylate kinase isoenzyme F38B2.4	2.0 - 5.7	C028R063	Q20140	TIGR01360	[96, 104]
	Pyruvate kinase	2.3 – 5.0	C020R004	O62619	pfam00224	[95, 96]
	Pyruvate kinase	2.0 – 4.6	C015R041		cd00288
	Pyruvate kinase	1.9 - 5.0	C155R159		cd00288
Proteases	Calpain-A catalytic subunit	MS	C197R005	Q11002	smart00720	[95, 102]
	Calpain-A catalytic subunit	MS	C018R134	Q11002	smart00230	[95, 102]
	Carboxypeptidase B^a	MS	C161R058	P04069	cd03860	[102, 106]
	Cytosolic non-specific dipeptidase	MS	C261R120	Q3ZC84	COG0624	[102, 106, 107]
	Cytosolic non-specific dipeptidase	1.9 - 2.9	C145R086	Q9D1A2	COG0624	[102, 106, 107]
	Proprotein convertase subtilisin/kexin type 5^a	2.5 - 4.2	C118R013	Q9NJ15	cd00064	[96]
	Serine protease persephone	MS	C118R020	Q9VWU1	smart00020	[61]
	Testisin	2.2 – 9.8	C007R130	Q9JHJ7	smart00020	[108, 109]
	Tryp_SPc, Trypsin-like serine protease	5.5 – 322.5	C158R134	NA	smart00020	[95, 96, 103]
	Tryp_SPc, Trypsin-like serine protease	MS	C009R051
	Tryp_SPc, Trypsin-like serine protease	MS	C008R159
	Zinc metalloproteinase nas-15^a	2.1 - 3.7	C134R018	P55115	cd04280	[95, 103]
	Prostasin^ab	MS	C135R082	Q16651	cd00190	[102, 110]
	ZnMc_adamalysin_II_like	MS	C083R024	NA	cd04269	[96, 102]
	Proclotting enzyme heavy chain	MS	C006R078	P21902	smart00020	[111]
	Gamma-glutamyltranspeptidase 1^b	1.7 – 3.4	C120R152	P20735	cl19223	[112]
pH regulation	Carbonic anhydrase 1	MS	C183R004	P83299	cd00326	[96, 113–115]
	Carbonic anhydrase 9	MS	C196R116	Q8VHB5	cd00326
	Carbonic anhydrase 9	MS	C131R016
	Carbonic anhydrase 9	MS	C161R087
Structural	Actin	MS	C223R146	Q92192	PTZ00004	[106, 116]
	Lamin Dm0	1.5 - 6.6	C220R106	P08928	pfam00038	[117]
	Outer dense fiber protein 2-like	2.5 - 5.2	C121R150	Q08B20	pfam02463	[51, 106]
	Kelch-like protein 20	MS	C022R130	Q5R7B8	NA	[96, 118]
	Tubulin alpha-2 chain	MS	C160R074	P06604	cd02186	[95, 106]
Transport	Solute carrier family 15 member 1	4.1 - 9.3	C170R033	P46059	TIGR00926	[96, 106]
	Solute carrier family 2, facilitated glucose transporter member 1	1.5 - 2.8	C192R047	P11166	pfam00083
	Sodium/glucose cotransporter 4	1.6 – 3.1	C170R069	Q2M3M2	pfam00474
	Solute carrier family 22 member 6-B	2.5 - 4.3	C072R016	Q66J52	TIGR00898
	Sodium-dependent nutrient amino acid transporter 1	MS	C167R125	B4JMC1	pfam00209
	Aquaporin-12A^b (LsGlp1_v1; [81])	1.7 - 5.3	C096R035	Q8IXF9	NA	[96, 119]
	Aquaporin-3 (Lsaqp12L2; [81])	3.7 - 10.4	C030R103	Q8R2N1	cd00333	[96, 119]
Other	Mucin-like glycoprotein	3.3 - 9.9	C218R155	NA	pfam01456	[102, 120]
	Major royal jelly protein 3^a	MS	C089R070	Q17060	NA	[121–124]
	Chorion peroxidase heavy chain^a	MS	C176R138	Q9VEG6	pfam03098	[125, 126]
	Chorion peroxidase heavy chain^a	MS	C154R094	Q9VEG6	pfam03098
	Peroxidase^a	MS	C026R132	Q01603	pfam03098
Energy	Fructose-bisphosphate aldolase	2.0 – 3.4	C230R040	O52402	PRK09197	[59, 80, 104]
	Fructose-bisphosphate aldolase	1.8 – 3.0	C085R145	P14540	PRK09197
	Fructose-bisphosphate aldolase	1.9 – 3.3	C069R104	P14540	cd00946
	Glycogen phosphorylase	1.7 – 2.5	C107R029	Q9XTL9	cd04300
	Glycogen phosphorylase	1.6 – 3.2	C085R148	Q9XTL9	cd04300
	Glycogen phosphorylase, brain form	1.6 – 3.5	C171R004	Q3B7M9	cd04300
Male Fertility	Protein ref(2)Pb	1.6 - 3.9	C036R126	Q24629	cd14320	[127]

References are provided based on the identification of similarly annotated sequences or proteins involved in male reproduction (e.g. spermatogenesis, seminal fluid proteins, testis expression) in related organisms. The degree of male-bias is indicated by a range of fold change (FC) across populations while MS indicates the listed probes showed male-specific expression. Transcripts denoted with ^a have a signal peptide for secretion (SwissProt) while those with ^b were annotated using e < 10^-5 due to the absence of homology at higher stringency. Transcripts without annotation are represented by NA (no annotation). Each transcript has a unique contig ID which can be found in Additional file 2 using the probes listed here

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ISSN: 1471-2164

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