De Hertogh B, et al. (2006) Emergence of species-specific transporters during evolution of the hemiascomycete phylum. Genetics 172(2):771-81
Abstract: We have traced the evolution patterns of 2,480 transmembrane transporters from five complete genome sequences spanning the entire Hemiascomycete phylum: Saccharomyces cerevisiae, Candida glabrata, Kluyveromyces lactis, Debaryomyces hansenii and Yarrowia lipolytica. The use of non-ambiguous functional and phylogenetic criteria derived from the TCDB classification system has allowed the identification within the Hemiascomycete phylum of 97 small phylogenetic transporter subfamilies comprising a total of 355 transporters submitted to four distinct evolution patterns named: "ubiquitous", "species- specific", "phylum-gains and-losses" or "homoplasic". This analysis identifies the transporters that contribute to the emergence of species during the evolution of the Hemiascomycete phylum and may aid to establish novel phylogenetic criteria for species classification.
| Status: Published | Type: Journal Article | PubMed ID: 16118182 |
Topics addressed in this paper
Number of different genes curated to this paper: 493
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| Topics | Genes linked to topics (#1 - 10 ) | |||||||||
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| AAC1 | AAC3 | ACS2 | ADP1 | ADY2 | AGC1 | AGP1 | AGP2 | AGP3 | ALP1 | |
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| Topics | Genes linked to topics (#11 - 20 ) | |||||||||
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| ALR1 | ALR2 | ANT1 | AQR1 | AQY1 | AQY2 | ARN1 | ARN2 | ARR3 | ASM4 | |
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| Topics | Genes linked to topics (#21 - 30 ) | |||||||||
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| ATG22 | ATM1 | ATO2 | ATO3 | ATP1 | ATP14 | ATP15 | ATP16 | ATP2 | ATP3 | |
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| Topics | Genes linked to topics (#31 - 40 ) | |||||||||
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| ATP4 | ATP5 | ATP7 | ATR1 | ATX2 | AUS1 | AVT1 | AVT2 | AVT3 | AVT4 | |
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| Topics | Genes linked to topics (#41 - 50 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| AVT5 | AVT6 | AVT7 | AZR1 | BAP2 | BAP3 | BIO5 | BOR1 | BPT1 | BSD2 | |
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| Topics | Genes linked to topics (#51 - 60 ) | |||||||||
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| BXI1 | CAN1 | CCC2 | CCH1 | CDC31 | CDC50 | COR1 | COT1 | COX10 | COX11 | |
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| Topics | Genes linked to topics (#61 - 70 ) | |||||||||
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| COX12 | COX13 | COX4 | COX5A | COX5B | COX6 | COX7 | COX8 | COX9 | CRC1 | |
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| Topics | Genes linked to topics (#71 - 80 ) | |||||||||
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| CRM1 | CSE1 | CSF1 | CSG2 | CTP1 | CTR1 | CTR2 | CTR3 | CTR9 | CYC1 | |
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| Topics | Genes linked to topics (#81 - 90 ) | |||||||||
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| CYT1 | DAL4 | DAL5 | DIC1 | DIP5 | DNF1 | DNF2 | DNF3 | DTR1 | DUR3 | |
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| Topics | Genes linked to topics (#91 - 100 ) | |||||||||
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| ECM10 | ENA1 | ENA2 | ENA5 | ENB1 | ERC1 | ERS1 | ESBP6 | FAA1 | FAA2 | |
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| Topics | Genes linked to topics (#101 - 110 ) | |||||||||
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| FAA3 | FAA4 | FAT1 | FCY2 | FCY21 | FCY22 | FEN2 | FET3 | FET4 | FET5 | |
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| Topics | Genes linked to topics (#111 - 120 ) | |||||||||
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| FLR1 | FLX1 | FPS1 | FRE1 | FRE2 | FRE3 | FRE4 | FRE5 | FRE6 | FRE7 | |
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| Topics | Genes linked to topics (#121 - 130 ) | |||||||||
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| FSF1 | FTH1 | FTR1 | FUI1 | FUR4 | GAL2 | GAP1 | GBP2 | GDT1 | GEF1 | |
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| Topics | Genes linked to topics (#131 - 140 ) | |||||||||
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| GEX1 | GEX2 | GFD1 | GGC1 | GIT1 | GLE1 | GLE2 | GMC1 | GNP1 | GSP1 | |
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| Topics | Genes linked to topics (#141 - 150 ) | |||||||||
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| GSP2 | GTR2 | GUP1 | GUP2 | HIP1 | HMG1 | HMG2 | HNM1 | HO | HOL1 | |
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| Topics | Genes linked to topics (#151 - 160 ) | |||||||||
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| HRB1 | HSP30 | HUT1 | HVG1 | HXT1 | HXT10 | HXT11 | HXT12 | HXT13 | HXT14 | |
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| Topics | Genes linked to topics (#161 - 170 ) | |||||||||
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| HXT15 | HXT16 | HXT17 | HXT2 | HXT3 | HXT4 | HXT5 | HXT6 | HXT7 | HXT8 | |
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| Topics | Genes linked to topics (#171 - 180 ) | |||||||||
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| HXT9 | IMA1 | IMA2 | IMA3 | IMA4 | IMA5 | ITR1 | ITR2 | JEN1 | KAP104 | |
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| Topics | Genes linked to topics (#181 - 190 ) | |||||||||
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| KAP114 | KAP120 | KAP122 | KAP123 | KAP95 | KAR2 | KHA1 | LEM3 | LEU5 | LHS1 | |
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| Topics | Genes linked to topics (#191 - 200 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| LOS1 | LYP1 | MAL11 | MAL12 | MAL31 | MAL32 | MCH1 | MCH2 | MCH4 | MCH5 | |
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| Topics | Genes linked to topics (#201 - 210 ) | |||||||||
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| MDL1 | MDL2 | MEP1 | MEP2 | MEP3 | MEX67 | MFM1 | MGE1 | MID1 | MIR1 | |
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| Topics | Genes linked to topics (#211 - 220 ) | |||||||||
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| MLP1 | MLP2 | MMP1 | MMT1 | MMT2 | MNR2 | MPH2 | MPH3 | MRH1 | MRS2 | |
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| Topics | Genes linked to topics (#221 - 230 ) | |||||||||
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| MRS3 | MRS4 | MSC2 | MSN5 | MTM1 | MTR10 | MTR2 | MUP1 | MUP3 | NCR1 | |
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| Topics | Genes linked to topics (#231 - 240 ) | |||||||||
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| NDC1 | NEO1 | NFT1 | NHA1 | NHX1 | NIC96 | NMD5 | NPL4 | NRT1 | NSP1 | |
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| Topics | Genes linked to topics (#241 - 250 ) | |||||||||
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| NTF2 | NUP1 | NUP100 | NUP116 | NUP120 | NUP133 | NUP145 | NUP157 | NUP159 | NUP170 | |
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| Topics | Genes linked to topics (#251 - 260 ) | |||||||||
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| NUP188 | NUP192 | NUP2 | NUP42 | NUP49 | NUP53 | NUP57 | NUP60 | NUP82 | NUP84 | |
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| Topics | Genes linked to topics (#261 - 270 ) | |||||||||
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| NUP85 | OAC1 | ODC1 | ODC2 | OPT1 | OPT2 | ORT1 | OXA1 | PAM18 | PCA1 | |
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| Topics | Genes linked to topics (#271 - 280 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PCP1 | PCS60 | PDR10 | PDR11 | PDR12 | PDR15 | PDR18 | PDR5 | PET8 | PET9 | |
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| Topics | Genes linked to topics (#281 - 290 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PEX10 | PEX12 | PEX13 | PEX14 | PEX17 | PEX2 | PEX4 | PEX5 | PEX7 | PEX8 | |
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| Topics | Genes linked to topics (#291 - 300 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PHO84 | PHO87 | PHO89 | PHO90 | PHO91 | PIC2 | PMA1 | PMA2 | PMC1 | PMP3 | |
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| Topics | Genes linked to topics (#301 - 310 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PMR1 | POM152 | POM34 | POR1 | POR2 | PSE1 | PTR2 | PUG1 | PUT4 | PXA1 | |
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| Topics | Genes linked to topics (#311 - 320 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PXA2 | QCR2 | QCR6 | QCR7 | QCR8 | QCR9 | QDR1 | QDR2 | QDR3 | RFT1 | |
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| Topics | Genes linked to topics (#321 - 330 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| RGT2 | RIM2 | RIP1 | RNA1 | RSB1 | RTA1 | RTG3 | SAL1 | SAM3 | SAM37 | |
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| Topics | Genes linked to topics (#331 - 340 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SBH1 | SBH2 | SEC61 | SEC62 | SEC63 | SEC66 | SEC72 | SEH1 | SFC1 | SGE1 | |
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| Topics | Genes linked to topics (#341 - 350 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SHH4 | SHY1 | SIT1 | SLY41 | SMF1 | SMF2 | SMF3 | SNA2 | SNA3 | SNA4 | |
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| Topics | Genes linked to topics (#351 - 360 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SNF3 | SNQ2 | SPF1 | SRM1 | SRP1 | SRP101 | SRP102 | SRP54 | SSA2 | SSA3 | |
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| Topics | Genes linked to topics (#361 - 370 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SSA4 | SSB1 | SSB2 | SSC1 | SSE1 | SSE2 | SSH1 | SSQ1 | SSS1 | SSU1 | |
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| Topics | Genes linked to topics (#371 - 380 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SSY1 | SSZ1 | STE6 | STL1 | STV1 | SUL1 | SUL2 | SXM1 | TAT1 | TAT2 | |
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| Topics | Genes linked to topics (#381 - 390 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| THI7 | THI72 | THI73 | TIM10 | TIM11 | TIM12 | TIM13 | TIM17 | TIM18 | TIM22 | |
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| Topics | Genes linked to topics (#391 - 400 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| TIM23 | TIM44 | TIM54 | TIM8 | TIM9 | TNA1 | TOK1 | TOM1 | TOM20 | TOM22 | |
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| Topics | Genes linked to topics (#401 - 410 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| TOM40 | TOM5 | TOM6 | TOM7 | TOM70 | TOM71 | TPC1 | TPN1 | TPO1 | TPO2 | |
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| Topics | Genes linked to topics (#411 - 420 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| TPO3 | TPO4 | TPO5 | TRK1 | TRK2 | UGA4 | UGO1 | VBA1 | VBA2 | VBA3 | |
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| Topics | Genes linked to topics (#421 - 430 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| VBA4 | VBA5 | VCX1 | VHC1 | VHT1 | VMA1 | VMA10 | VMA11 | VMA13 | VMA16 | |
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| Topics | Genes linked to topics (#431 - 440 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| VMA2 | VMA21 | VMA3 | VMA4 | VMA5 | VMA6 | VMA7 | VMA8 | VMR1 | VNX1 | |
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| Topics | Genes linked to topics (#441 - 450 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| VPH1 | VPS73 | VRG4 | YBR220C | YBR241C | YBT1 | YCF1 | YCT1 | YDL119C | YDL199C | |
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| Topics | Genes linked to topics (#451 - 460 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| YDR338C | YDR387C | YEA4 | YEA6 | YER039C-A | YFL040W | YFL054C | YFR045W | YGL114W | YGR125W | |
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| Topics | Genes linked to topics (#461 - 470 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| YHK8 | YHL008C | YHM2 | YIA6 | YIL166C | YIL171W | YJL193W | YKE4 | YKR104W | YLL053C | |
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| Topics | Genes linked to topics (#471 - 480 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| YLR046C | YMC1 | YMC2 | YMD8 | YMR166C | YMR279C | YNR048W | YOL075C | YOL162W | YOL163W | |
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| Topics | Genes linked to topics (#481 - 490 ) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| YOR088W | YOR1 | YOR378W | YPK9 | YPL088W | YPR003C | YPR011C | YRB2 | YRO2 | YVC1 | |
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| Topics | Genes linked to topics (#491 - 493 ) | ||
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| ZRC1 | ZRT1 | ZRT2 | |
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