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 | GLAKRKPRSRRECYSLDGSCYLGRCPSVLKKYGWCGTLKRCCIR | |
| VkBD1_VARKO | LzBD1 | SnBD1, | AMGDLYDSLECHNHHGHCRRICFHNERSIGTCTNRRQLCCK | |
| VkBD2_VARKO | LzBD2 | SnBD2, | VkBD3,4,5,6 | GKGDFVTLGCLFRGGACKTDTCRDNEVQIGNCSNTKQLCCKKTR |
| VkBD3_VARKO | LzBD3 | 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 | VkBD2,3,4,5 | GHSNEIDTQQCLKDKGTCHPTICPTQKMSKGTCYSGAQLCCVGESVHMCVRPFFPSCCFSRLSCSRSGGL | |
| VkBD7_VARKO | LzBD6,82 | SnBD5,6, | VkBD8 | GQPHICKRMGGYCQITSKPCPYGFLPTTCGIFQTCCAKKPPTTNDCEKLGGFCRVPLHEKCPSGQDLPANCGINARCCKPETA |
| VkBD8_VARKO | LzBD6,82 | SnBD5,6, | VkBD7 | GQVPACTKLGGHCVTPLTVTCPYGSLGANCGINAICCAR |
| VkBD9_VARKO | TIGTFLVIQAKLCRKAGGFCISRFAHCPSSEIILIRCRSAQKCCKQ | |||
| VkBD10_VARKO | LzBD11 | SnBD7, | EGCPVEAMLLTCTSLGGFCMLEPNQTCPSGLILDVPCHFKRRCCSKKEV | |
| VkBD11_VARKO | 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 | 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 | VkBD17, 18 | GGGLQDGEDPPGPRASCNSGRGYCLRCGAACPSGQIYVYNDCANPCSNKCCVRR | ||
| VkBD17_VARKO | VkBD16,18 | GQSSYWGHLSCNSGRGYCLPCHLRCPYGYYYYNDCPGQCRYKCCVRR | ||
| VkBD18_VARKO | VkBD16,17 | APDRVPHEQAPPCNHGLGYCHPCSLPCTSGKYYYYNDCDKPCANRCCTKQ | ||
| VkBD19_VARKO | GTELMEEEYLARAILCHSGQGVCRPRDLQCPSGLTYIYNDCPKTELYKCCAK | |||
| VkBD20_VARKO | EQNRLARSKCVCRKFCYPNEYPMGMCAIILVPMCCTFDPQGGS | |||
| VkBD21_VARKO | VkBD22 | VSDKSSSCRSAGGKCYLILCPRGTGRIGKCSFTHVCCK | ||
| VkBD22_VARKO | VkBD21 | GRTEVHDVRMCKLYGGECFLLVCPPGRAFIGKCSRLNVCCRG | ||
| VkBD23_VARKO | LzBD26 | SnBD9, 10 (Colubroidea only) | GLAPDTPHDRSSCELNSGFCYSSNCPRCFGQYGFCDDKHPSCCVRDNSIPGCEVVTTPTYDKSSKTTAVPTTSETAPPQTAPPQTAPPQTAPPQTAPDESDKKC | |
| VkBD24_VARKO | LzBD27 | GYGLVPAGLSDTIKCRTTPRSFCKAVVCPPTFEPTGTCFGGSMHCCSK | ||
| VkBD25_VARKO | GEFANISNYYQCRHAGAMCAIFKCPAPFNSIGKCGIFKPCCI | |||
| VkBD26_VARKO | GSTEIIGEAKCAEYTGTCRLFECPISSMVENIGYCREDYVCCIR | |||
| VkBD27_VARKO | LzBD31 | DGGTCRQLKGFCSTRRCPDKTFEVLGRCTPRKACCQKKANA | ||
| VkBD28_VARKO | LzBD32,33 | SnBD13,14 | GNAQAAEPDTLQCVRAGGSCNFGECRPPSVASGTCKGETLNCCKW | |
| VkBD29_VARKO | LzBD34,35, 37,73 | VkBD30,31 | GHSVSNEAECKREGGFCIIAIGNPCRFPYGFIGKCSWWKFCCK | |
| VkBD30_VARKO | LzBD34,35, 37,73 | VkBD29,31 | GSARWVKNEDECKEDGGTCLAIVIGGCGPLLQIGICGLGRNCCK | |
| VkBD31_VARKO | LzBD34,35, 37,73 | VkBD29,30 | GCSISDRKECREGGGFCLPFLPNMCQVFSIIIGKCSRWSYCCKW | |
| VkBD32_VARKO | ASTINTSQQCKNAGGHCIWSSCGFPLCPVGRCGYWSLCCKA | |||
| VkBD33_VARKO | GTPASPVRGPLQCVKQGGFCMSGNCRFPLRKLGTCHRFKACCIR | |||
| VkBD34_VARKO | LzBD39 | SnBD15 | GIYTTLDLEMLSCLSAKDAYCKTGHCLEYSVSLGKCNSYLSCCRSMINNLWRCAIAKGYCSMWTCPPPLIKNGRCSRDSPCCVQ | |
| VkBD35_VARKO | LzBD41,43 | SnBD17 (Colubroidea only) | VkBD36 | GLAMRTERIDSAEECAKIQGFCTSEPECNTVYPIQGTCGEGTLCCLE |
| VkBD36_VARKO | LzBD41,43 | SnBD17 (Colubroidea only) | VkBD35 | TGYTCVLEEILTKEDCELIGATCIDGEDCNPPFPSQGTCGEGTVCCIP |
| VkBD37_VARKO | LzBD50 | GLTTYVTSPEECESIKGFCTPRLCQENFRTLGECSAGIPCCTR | ||
| VkBD38_VARKO | SnBD17 (python only) | GFTRDIWDRPTCRSSQGFCWLITCPWPFAKHIGECIWPILRCCA | ||
| VkBD39_VARKO | LzBD52,53,55 (2 defensin domains) | VkBD43 | DLAADCRLREGRCTRTSCSKTDIYLGECAKEIQCCKRDPALHCERQGGLCTQASCTGSDINLGPCGRGLKCCKKDPVAHCEAQGGKCVQNSCPTSDVFLGRCGNGFQCCKT | |
| VkBD40_VARKO | LzBD52–55 | GQPQKYIEKKECMDFGAQCTKAHCGEDYIFYGFCRTGVACCKR | ||
| VkBD41_VARKO | LzBD57 | SnBD22 (pseudo-gene) | GVALPFQDDSVCIERGGRCMHLPCHPLRRIGRCLLNTYCCH | |
| VkBD42_VARKO | LzBD58 | GSTQFIKLAHKCLDAGGRCQKQACDFRKSIGRCNDQELCCKR | ||
| VkBD43_VARKO | LzBD52,53,55 (2 defensin domains) | VkBD39 | DPVASCASQGGKCTPDICPSNFVLVGQCDQKLLCCKRDPVAHCKSQGGRCMQSRCASNNEYLGDCGPAVWCCKM | |
| VkBD44_VARKO | GFAHMGINFREQCQWAEGKCQLYHCPAGWKKIGKCSKVVPCCSDK | |||
| VkBD45_VARKO | GSNPKQCEQKRAQCMIVCPRTHKKVGHCGRSLSCCAQR | |||
| VkBD46_VARKO | GYTSAVARCRRRGGKCHFGRCPQGKNRIGLCFLGTPCCTR | |||
| VkBD47_VARKO | LzBD63 | GFTTEIRRARTCIEANGKCRLATCLHDPWERIGKCGDKRFCCKK | ||
| VkBD48_VARKO | VkBD50,52, 53,54 | GHTFGFLRCRRNGGHCFPRGCPVGWKPRGRCIGRFTCCVRQGKRPAMEKARQ | ||
| VkBD49_VARKO | GHTFGVGECRDQFGSCKFAVCRNGWRRVGWCFLAVPCCRR | |||
| VkBD50_VARKO | VkBD48,52, 53,54 | GTGQTPGALRCQRNGGLCFPWGCPPGWRPRGRCFGRFTCCIR | ||
| VkBD51_VARKO | GRTSGLVACQRKRGICLVGRCRPGWRQVGWCSRGVSCCKW | |||
| VkBD52_VARKO | VkBD48,50, 53,54 | GQKPVILRCLRNGGRCFSWRCPSGWMLRGPCLRPFICCVR | ||
| VkBD53_VARKO | VkBD48,50, 52,54 | GRTFGPPRCRRIGGFCIPRRCPSGWRQRGPCLGPFTCCKR | ||
| VkBD54_VARKO | VkBD48,50, 52,53 | GTARTFGPARCRRIGGLCIPWGCPSGWRRRGRCFGRFTCCKR | ||
| VkBD55_VARKO | GGSSDGQPVSAPSSARLMRRCRSFYSPCKTCPVLLKELSCQVVHHPCCPPLKLLHL | |||
| Scaffold 7 | We identified seven β-defensins on the edge of a large scaffold. This cluster ends with the gene XHO1 | |||
| VkBD56_VARKO | VkBD58,60 | GCLGVYEKGRRQCCTRNGHCYFLFCKKGTVKIGTCNFFSRCCSR | ||
| VkBD57_VARKO | GLAGENELDQRGCRRRCLVRHCTRRGRFYVCRRYYICCGR | |||
| VkBD58_VARKO | VkBD56,60 | ECLGVYVKGRRQCRTQNGHCYFFYCKKDTYKIGICNFFTICCSR | ||
| VkBD59_VARKO | VSSPEECGRHGGLRLAGPRFSCWSGLLTGHCDAKHRCCKR | |||
| VkBD60_VARKO | VkBD56,58 | ECHGMYVNGKRQCHTQNGHCYFLYCKKDTYKIGTCNFFSRCCSR | ||
| VkBD61_VARKO | LzBD77 | GFSWSNDATLRCRYTGGYCDSLICRWPLRNAGFRCKNNRPCCKR | ||
| VkBD62_VARKO | LzBD78 | 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 | PGPYPCNWVCHTSPGVQSVCSAMPVRLKLLLGLASVCISVSTLCCFRQH | |||
| VkBD80a_VARKO | LzBD80 | SnBD40, | GRCRRLKGVCRHTLCHPVEVYVGRCNNGMGNCCVDDAEDIRKHIK | |
| VkBD80b_VARKO | LzBD80 | SnBD40, | GRRRRLKGVCRHTLCHPVEVYVGRCNNGMGNCCVDDAEDIRKHIK | |
Reptile β-defensin orthologs are also indicated (where they exist) as well as the β-defensin peptide sequences encoded by each gene. Overall, 66 β-defensin genes were identified, of which 4 encode multiple defensin domains (VkBD7, VkBD34, VkBD39, and VkBD43)