Table 1.
Inventory of evidently transcribed ESCRT-III members in Hordeum vulgare, Triticum aestivum, Oryza sativa ssp. japonica and Zea mays
| ᅟ | Name | Accession number | |||
|---|---|---|---|---|---|
| Full-length cDNA/EST contig | Derived protein | aa | Genomic identifier g | ||
| VPS2/CHMP2 | |||||
| H. vulgare h | VPS2.1 | AK250448 | – | 224 | MLOC_67016 |
| VPS2.2 | AK375733 | BAK06928 | 229 | MLOC_10666 f | |
| VPS2.3 | AK368215 | BAJ99418 | 212 | MLOC_16800 f | |
| T. aestivum | VPS2.1 | AK330978 | – | 224 | nd |
| VPS2.2 | Contig14460 a | – | 229 | nd | |
| VPS2.3 | Contig17212 a | – | 212 | nd | |
| O. sativa | VPS2.1a | NM_001075069 | NP_001068537 | 224 | Os11g0703400 |
| VPS2.1b | NM_001065783 | NP_001059248 | 225 | Os07g0236800 | |
| VPS2.2 | NM_001057274 | NP_001050739 | 229 | Os03g0639800 | |
| VPS2.3 | NM_001071383 | NP_001064848 | 212 | Os10g0476400 | |
| Z. mays | CHMP2.1a | EU969317 | ACG41435 | 224 | Scaffold 340 ef |
| CHMP2.1b | NM_001139057 | NP_001132529 | 223 | GRMZM2G431900 | |
| CHMP2.2 | NM_001157066 | NP_001150538 | 229 | GRMZM2G046676 | |
| CHMP2.3 | NM_001155163 | NP_001148635 | 212 | GRMZM2G004996 | |
| A. thaliana | VPS2.1 | NM_126650 | NP_565336 | 225 | At2g06530 |
| VPS2.2 | NM_123823 | NP_199269 | 222 | At5g44560 | |
| VPS2.3 | NM_100276 | NP_563696 | 210 | At1g03950 | |
| VPS 24/CHMP3 | |||||
| H. vulgare h | VPS24 | AK366876 | BAJ98079 | 230 | MLOC_73329 |
| T. aestivum | VPS24 | AK333579 | – | 230 | nd |
| O. sativa | VPS24a | AK242193 | – | 231 | Os03g01810 |
| VPS24b | TC516772 b | – | 229 | Os07g29630 | |
| Z. mays | CHMP3a | EU953837 | ACG25955 | 228 | GRMZM2G042552 |
| CHMP3b | EU956407 | ACG28525 | 229 | GRMZM2G165195 | |
| A. thaliana | VPS24.1 | NM_122201 | NP_197686 | 229 | At5g22950 |
| VPS24.2 | NM_114369 | NP_190086 | 200 | At3g45000 | |
| VPS20/CHMP6 | |||||
| H. vulgare h | VPS20 | AK357563 | BAJ88777 | 229 | MLOC_30872i |
| T. aestivum | VPS20 | Contig13879 a | – | 229 | – |
| O. sativa | VPS20 | NM_001053857 | NP_001047322 | 228 | Os02g0596500 |
| Z. mays | CHMP6 | NM_001143085 | NP_001136557 | 229 | GRMZM2G122983 |
| A. thaliana | VPS20.1 | NM_125783 | NP_568980 | 219 | At5g63880 |
| VPS20.2 | NM_120962 | NP_196488 | 216 | At5g09260 | |
| SNF7/CHMP4 | |||||
| H. vulgare h | SNF7a | AK376941 | BAK08135 | 220 | MLOC_42957 f |
| SNF7b | AK354835 | BAJ86054 | 222 | MLOC_16305 f | |
| SNF7c | AK366149 | BAJ97352 | 218 | MLOC_17778 f | |
| T. aestivum | SNF7a | AK333051 | – | 220 | nd |
| SNF7b | AK331201 | – | 222 | nd | |
| SNF7c | Contig9162 a | – | 217 | nd | |
| O. sativa | SNF7a | NM_001069258 | NP_001062723 | 220 | Os09g0267600 |
| SNF7b | NM_001064575 | NP_001058040 | 220 | Os06g0608500 | |
| SNF7c | NM_001072148 | NP_001065616 | 216 | Os11g0123500 | |
| Z. mays | CHMP4a | NM_001254842 | NP_001241771 | 222 | GRMZM2G107757 |
| CHMP4b | EU975735 | ACG47853 | 226 | GRMZM2G044805 | |
| CHMP4c | TC482666 d | – | 223 | GRMZM2G103217 | |
| A. thaliana | SNF7.1/VPS32.2 | NM_119060 | NP_194645 | 219 | At4g29160 |
| SNF7.2/VPS32.1 | NM_127541 | NP_179573 | 213 | At2g19830 | |
| VPS46/CHMP1 | |||||
| H. vulgare h | SAL1 (Tian et al., 2007) | AK252514 | ABW81400 | 204 | MLOC_57384 |
| T. aestivum | VPS46 | AK335766 | – | 204 | nd |
| O. sativa | VPS46 | NM_001064712 | NP_001058177 | 205 | Os06g0643300 |
| Z. mays | SAL1 (Shen et al., 2003) | NM_001111748 | NP_001105218 | 204 | GRMZM2G117935 |
| A. thaliana | CHMP1A, VPS46.2 | NM_105961 | NP_565053 | 203 | At1g73030 |
| CHMP1B, VPS46.1 | NM_101635 | NP_173215 | 203 | At1g17730 | |
| VPS60/CHMP5 | |||||
| H. vulgare h | VPS60a | AK372130 | BAK03328 | 232 | MLOC5296 |
| VPS60b | AK367793 | BAJ98996 | 228 | barke_contig_1823961 f | |
| T. aestivum | VPS60a | AK332171 | – | 232 | nd |
| VPS60b | tplb0015n24 c | – | 228 | nd | |
| O. sativa | VPS60a | NM_001060924 | NP_001054389 | 232 | Os05g0102900 |
| VPS60b | NM_001185188 | NP_001172117 | 232 | Os01g0102950 | |
| Z. mays | CHMP5a | NM_001157823 | NP_001151295 | 228 | GRMZM2G092468 |
| CHMP5b | BT040588 | ACF85593 | 230 | GRMZM2G069827 | |
| A. thaliana | VPS60.1 | NM_111900 | NP_187675 | 235 | At3g10640 |
| VPS60.2 | NM_120567 | NP_568143 | 235 | At5g04850 | |
Footnotes explain database identifiers other than those of GenBank. Cereal ESCRT-III subgroup member designation was chosen to follow A. thaliana nomenclature with numbering for VPS2 in cases of cereal members grouping together with the corresponding A. thaliana member. Alphabetic characters were used for cereal members where this is not the case (i.e. SNF7a, b, c). Arabidopsis members have been annotated in (Winter and Hauser 2006)
a EST contig identifier of KOMUGI/Wheat genetic Resources database database
b DFCI Oryza sativa Gene Index (OsGI): http://compbio.dfci.harvard.edu/cgi-bin/tgi/tc_report.pl?tc=TC516772&species=rice
c cDNA identifier of KOMUGI/Wheat genetic Resources database database
d DFCI Zea mays Gene Index (ZmGI): http://compbio.dfci.harvard.edu/cgi-bin/tgi/tc_report.pl?species=maize&tc=TC482666
e B73 RefGen_v3 Scaffold 340, incomplete
f Genomic identifier does not cover full length of transcript
g Genomic identifiers of barley are based on Hordeum vulgare Morex genome
h cDNA/protein sequences are from Hordeum vulgare Haruna Nijo
i 5′ region of cDNA is not aligned to genomic identifier