Table 2 Identified Komodo dragon Defensin genes grouped based on scaffold locations of gene clusters
Name | Closest Anole Ortholog | Closest Snake Ortholog | Paralogs | Sequences |
|---|---|---|---|---|
Scaffold 210 | This scaffold contains the cluster of six β-ovodefensin genes, one intercluster β defensin, and 15 β-defensin genes that are similar to anole lizard β-defensins. The cluster begins with the CTSB gene. These genes include large β defensins. | |||
VkBDic1_VARCO | LzBD81 | SnBDic1,2 | Â | GLAKRKPRSRRECYSLDGSCYLGRCPSVLKKYGWCGTLKRCCIR |
VkBD1_VARKO | LzBD1 | SnBD1, | Â | AMGDLYDSLECHNHHGHCRRICFHNERSIGTCTNRRQLCCK |
VkBD2_VARKO | LzBD2 | SnBD2, | VkBD3,4,5,6 | GKGDFVTLGCLFRGGACKTDTCRDNEVQIGNCSNTKQLCCKKTR |
VkBD3_VARKO | LzBD3 | Â | VkBD2,4,5,6 | GALQDKKGSCDLALHNCRMGFCSQEEIPTGEFCFEPVILCCKHLPEKSKSPERLEGVASFADVLRNLL |
VkBD4_VARKO | LzBD4 | SnBD3, | VkBD2,3,5,6 | GGGQREARFVSHCLRRGGICRYDDCSEGEEQIGTCYHHTMICCRDEVM |
VkBD5_VARKO | LzBD4 | SnBD3,4, | VkBD2,3,4,6 | GASLNLSARICWQRGGRCRSSPCYYDEAQIGTCYHARLKCCRQTE |
VkBD6_VARKO | LzBD5 | Â | VkBD2,3,4,5 | GHSNEIDTQQCLKDKGTCHPTICPTQKMSKGTCYSGAQLCCVGESVHMCVRPFFPSCCFSRLSCSRSGGL |
VkBD7_VARKO | LzBD6,82 | SnBD5,6, | VkBD8 | GQPHICKRMGGYCQITSKPCPYGFLPTTCGIFQTCCAKKPPTTNDCEKLGGFCRVPLHEKCPSGQDLPANCGINARCCKPETA |
VkBD8_VARKO | LzBD6,82 | SnBD5,6, | VkBD7 | GQVPACTKLGGHCVTPLTVTCPYGSLGANCGINAICCAR |
VkBD9_VARKO | Â | Â | Â | TIGTFLVIQAKLCRKAGGFCISRFAHCPSSEIILIRCRSAQKCCKQ |
VkBD10_VARKO | LzBD11 | SnBD7, | Â | EGCPVEAMLLTCTSLGGFCMLEPNQTCPSGLILDVPCHFKRRCCSKKEV |
VkBD11_VARKO | Â | Â | Â | GQSLSCRELGGLCVALADDDCDSEEILPADCGRLTLCCKG |
VkBD12_VARKO | LzBD12–17 | SnBD8 (python only) | VkBD13,14 | EQALRRVPPVQIRSIRRYCNGRDGYCLDRKFFCESGFVYKEEYNDCMFQNKNKCCVIQKSK |
VkBD13_VARKO | LzBD12–17 | SnBD8 (python only) | VkBD12,14 | DPSLPSKKAATSRFTTFACNGNFGYCLPRNWRCFSGLVYKEEFNDCPLPDIFKCCL |
VkBD14_VARKO | LzBD12–17 | SnBD8 (python only) | VkBD12,13 | NKGLPTTTRVGKIPCLGPWGHCFFRKYRCASGFVMKERFNNCPNTRTLKCCVL |
VkBD15_VARKO | Â | Â | Â | GFLHVLARHCQKLGGTCKPHKAQCKVRIQILVPCGPGRKCCL |
Scaffold 286 | We identified 40 β defensins genes, including multiple large defensins (with some peptides containing eight instead of typical six cysteine residues) and peptides with multiple domains. | |||
VkBD16_VARKO | Â | Â | VkBD17, 18 | GGGLQDGEDPPGPRASCNSGRGYCLRCGAACPSGQIYVYNDCANPCSNKCCVRR |
VkBD17_VARKO | Â | Â | VkBD16,18 | GQSSYWGHLSCNSGRGYCLPCHLRCPYGYYYYNDCPGQCRYKCCVRR |
VkBD18_VARKO | Â | Â | VkBD16,17 | APDRVPHEQAPPCNHGLGYCHPCSLPCTSGKYYYYNDCDKPCANRCCTKQ |
VkBD19_VARKO | Â | Â | Â | GTELMEEEYLARAILCHSGQGVCRPRDLQCPSGLTYIYNDCPKTELYKCCAK |
VkBD20_VARKO | Â | Â | Â | EQNRLARSKCVCRKFCYPNEYPMGMCAIILVPMCCTFDPQGGS |
VkBD21_VARKO | Â | Â | VkBD22 | VSDKSSSCRSAGGKCYLILCPRGTGRIGKCSFTHVCCK |
VkBD22_VARKO | Â | Â | VkBD21 | GRTEVHDVRMCKLYGGECFLLVCPPGRAFIGKCSRLNVCCRG |
VkBD23_VARKO | LzBD26 | SnBD9, 10 (Colubroidea only) | Â | GLAPDTPHDRSSCELNSGFCYSSNCPRCFGQYGFCDDKHPSCCVRDNSIPGCEVVTTPTYDKSSKTTAVPTTSETAPPQTAPPQTAPPQTAPPQTAPDESDKKC |
VkBD24_VARKO | LzBD27 | Â | Â | GYGLVPAGLSDTIKCRTTPRSFCKAVVCPPTFEPTGTCFGGSMHCCSK |
VkBD25_VARKO | Â | Â | Â | GEFANISNYYQCRHAGAMCAIFKCPAPFNSIGKCGIFKPCCI |
VkBD26_VARKO | Â | Â | Â | GSTEIIGEAKCAEYTGTCRLFECPISSMVENIGYCREDYVCCIR |
VkBD27_VARKO | LzBD31 | Â | Â | DGGTCRQLKGFCSTRRCPDKTFEVLGRCTPRKACCQKKANA |
VkBD28_VARKO | LzBD32,33 | SnBD13,14 | Â | GNAQAAEPDTLQCVRAGGSCNFGECRPPSVASGTCKGETLNCCKW |
VkBD29_VARKO | LzBD34,35, 37,73 | Â | VkBD30,31 | GHSVSNEAECKREGGFCIIAIGNPCRFPYGFIGKCSWWKFCCK |
VkBD30_VARKO | LzBD34,35, 37,73 | Â | VkBD29,31 | GSARWVKNEDECKEDGGTCLAIVIGGCGPLLQIGICGLGRNCCK |
VkBD31_VARKO | LzBD34,35, 37,73 | Â | VkBD29,30 | GCSISDRKECREGGGFCLPFLPNMCQVFSIIIGKCSRWSYCCKW |
VkBD32_VARKO | Â | Â | Â | ASTINTSQQCKNAGGHCIWSSCGFPLCPVGRCGYWSLCCKA |
VkBD33_VARKO | Â | Â | Â | GTPASPVRGPLQCVKQGGFCMSGNCRFPLRKLGTCHRFKACCIR |
VkBD34_VARKO | LzBD39 | SnBD15 | Â | GIYTTLDLEMLSCLSAKDAYCKTGHCLEYSVSLGKCNSYLSCCRSMINNLWRCAIAKGYCSMWTCPPPLIKNGRCSRDSPCCVQ |
VkBD35_VARKO | LzBD41,43 | SnBD17 (Colubroidea only) | VkBD36 | GLAMRTERIDSAEECAKIQGFCTSEPECNTVYPIQGTCGEGTLCCLE |
VkBD36_VARKO | LzBD41,43 | SnBD17 (Colubroidea only) | VkBD35 | TGYTCVLEEILTKEDCELIGATCIDGEDCNPPFPSQGTCGEGTVCCIP |
VkBD37_VARKO | LzBD50 | Â | Â | GLTTYVTSPEECESIKGFCTPRLCQENFRTLGECSAGIPCCTR |
VkBD38_VARKO | Â | SnBD17 (python only) | Â | GFTRDIWDRPTCRSSQGFCWLITCPWPFAKHIGECIWPILRCCA |
VkBD39_VARKO | LzBD52,53,55 (2 defensin domains) | Â | VkBD43 | DLAADCRLREGRCTRTSCSKTDIYLGECAKEIQCCKRDPALHCERQGGLCTQASCTGSDINLGPCGRGLKCCKKDPVAHCEAQGGKCVQNSCPTSDVFLGRCGNGFQCCKT |
VkBD40_VARKO | LzBD52–55 |  |  | GQPQKYIEKKECMDFGAQCTKAHCGEDYIFYGFCRTGVACCKR |
VkBD41_VARKO | LzBD57 | SnBD22 (pseudo-gene) | Â | GVALPFQDDSVCIERGGRCMHLPCHPLRRIGRCLLNTYCCH |
VkBD42_VARKO | LzBD58 | Â | Â | GSTQFIKLAHKCLDAGGRCQKQACDFRKSIGRCNDQELCCKR |
VkBD43_VARKO | LzBD52,53,55 (2 defensin domains) | Â | VkBD39 | DPVASCASQGGKCTPDICPSNFVLVGQCDQKLLCCKRDPVAHCKSQGGRCMQSRCASNNEYLGDCGPAVWCCKM |
VkBD44_VARKO | Â | Â | Â | GFAHMGINFREQCQWAEGKCQLYHCPAGWKKIGKCSKVVPCCSDK |
VkBD45_VARKO | Â | Â | Â | GSNPKQCEQKRAQCMIVCPRTHKKVGHCGRSLSCCAQR |
VkBD46_VARKO | Â | Â | Â | GYTSAVARCRRRGGKCHFGRCPQGKNRIGLCFLGTPCCTR |
VkBD47_VARKO | LzBD63 | Â | Â | GFTTEIRRARTCIEANGKCRLATCLHDPWERIGKCGDKRFCCKK |
VkBD48_VARKO | Â | Â | VkBD50,52, 53,54 | GHTFGFLRCRRNGGHCFPRGCPVGWKPRGRCIGRFTCCVRQGKRPAMEKARQ |
VkBD49_VARKO | Â | Â | Â | GHTFGVGECRDQFGSCKFAVCRNGWRRVGWCFLAVPCCRR |
VkBD50_VARKO | Â | Â | VkBD48,52, 53,54 | GTGQTPGALRCQRNGGLCFPWGCPPGWRPRGRCFGRFTCCIR |
VkBD51_VARKO | Â | Â | Â | GRTSGLVACQRKRGICLVGRCRPGWRQVGWCSRGVSCCKW |
VkBD52_VARKO | Â | Â | VkBD48,50, 53,54 | GQKPVILRCLRNGGRCFSWRCPSGWMLRGPCLRPFICCVR |
VkBD53_VARKO | Â | Â | VkBD48,50, 52,54 | GRTFGPPRCRRIGGFCIPRRCPSGWRQRGPCLGPFTCCKR |
VkBD54_VARKO | Â | Â | VkBD48,50, 52,53 | GTARTFGPARCRRIGGLCIPWGCPSGWRRRGRCFGRFTCCKR |
VkBD55_VARKO | Â | Â | Â | GGSSDGQPVSAPSSARLMRRCRSFYSPCKTCPVLLKELSCQVVHHPCCPPLKLLHL |
Scaffold 7 | We identified seven β-defensins on the edge of a large scaffold. This cluster ends with the gene XHO1 | |||
VkBD56_VARKO | Â | Â | VkBD58,60 | GCLGVYEKGRRQCCTRNGHCYFLFCKKGTVKIGTCNFFSRCCSR |
VkBD57_VARKO | Â | Â | Â | GLAGENELDQRGCRRRCLVRHCTRRGRFYVCRRYYICCGR |
VkBD58_VARKO | Â | Â | VkBD56,60 | ECLGVYVKGRRQCRTQNGHCYFFYCKKDTYKIGICNFFTICCSR |
VkBD59_VARKO | Â | Â | Â | VSSPEECGRHGGLRLAGPRFSCWSGLLTGHCDAKHRCCKR |
VkBD60_VARKO | Â | Â | VkBD56,58 | ECHGMYVNGKRQCHTQNGHCYFLYCKKDTYKIGTCNFFSRCCSR |
VkBD61_VARKO | LzBD77 | Â | Â | GFSWSNDATLRCRYTGGYCDSLICRWPLRNAGFRCKNNRPCCKR |
VkBD62_VARKO | LzBD78 | Â | Â | GSARTPRSDLECQVHKGMCFPHGCPAQWSRIGSCSVRKHRCCR |
Scaffold 45 | We identified three β-defensin genes and TRAM2 on the edge of a large scaffold. The gene VKBD80 may be a duplication. TRAM2represents the end of this cluster. | |||
VkBD79_VARKO | Â | Â | Â | PGPYPCNWVCHTSPGVQSVCSAMPVRLKLLLGLASVCISVSTLCCFRQH |
VkBD80a_VARKO | LzBD80 | SnBD40, | Â | GRCRRLKGVCRHTLCHPVEVYVGRCNNGMGNCCVDDAEDIRKHIK |
VkBD80b_VARKO | LzBD80 | SnBD40, | Â | GRRRRLKGVCRHTLCHPVEVYVGRCNNGMGNCCVDDAEDIRKHIK |