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the base of the chordate branch of life, a single TACC gene was identified in the genome of the urochordate Ciona intestinalis [11], and a partial TACC sequence from an analysis of the Halocynthia rortezi EST database [12]. This confirms the original assumption that a single TACC gene was present in the chordate ancestor. The next major event in the evolution of the chordate genome has been suggested to have occurred 687 ± 155.7 million years ago (MYA), with the first duplication of the chordate genome, and a second duplication occurring shortly thereafter. Thus, if the TACC genes were duplicated at both events, we would expect to identify four TACC genes in the most \"primitive\" compact vertebrate genome sequenced to date, the pufferfish Takifugu rubripes, with three genes corresponding to the human TACC1-3, and, in keeping with the proposed model for genomic duplication of the chromosomal loci for the TACC genes (discussed below), a possible fourth gene deriving from the TACC3 ancestor. Indeed, four TACC genes were identified in T. rubripes. Of these, two genes corresponded to the T. rubripes orthologues of human TACC2 and TACC3. However, the other two genes, trTACC1A and trTACC1B are clearly most related to TACC1 (Fig. 1). Although trTACC1A is highly homologous to trTACC1B, the latter encodes a significantly smaller predicted protein. The trTACC1B gene is encoded by 15 exons over approximately 7 kb of the Takifugu Scaffold 191 (see below). A search of this region using the trTACC1A sequence and gene prediction software has so far failed to identify additional exons of trTACC1B. However, given the intron/exon structure of this apparently complete gene, it appears likely that trTACC1B is active in the pufferfish, and presumably fulfils either a temporal-spatial specific function within the organism, or a distinct function from the larger trTACC1A product within the cell. Thus, based upon the surrounding chromosomal loci (see below), the trTACC1A and trTACC1B genes appear to have arisen from the duplication of the chromosomal segment containing the teleost TACC1 ancestor, during the additional partial genomic duplication that occurred in the teleost lineage. Therefore, this analysis of T. rubripes does not support the hypothesis that the region surrounding the TACC3 ancestor was included in the second round of vertebrate genomic duplication."}

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the base of the chordate branch of life, a single TACC gene was identified in the genome of the urochordate Ciona intestinalis [11], and a partial TACC sequence from an analysis of the Halocynthia rortezi EST database [12]. This confirms the original assumption that a single TACC gene was present in the chordate ancestor. The next major event in the evolution of the chordate genome has been suggested to have occurred 687 ± 155.7 million years ago (MYA), with the first duplication of the chordate genome, and a second duplication occurring shortly thereafter. Thus, if the TACC genes were duplicated at both events, we would expect to identify four TACC genes in the most \"primitive\" compact vertebrate genome sequenced to date, the pufferfish Takifugu rubripes, with three genes corresponding to the human TACC1-3, and, in keeping with the proposed model for genomic duplication of the chromosomal loci for the TACC genes (discussed below), a possible fourth gene deriving from the TACC3 ancestor. Indeed, four TACC genes were identified in T. rubripes. Of these, two genes corresponded to the T. rubripes orthologues of human TACC2 and TACC3. However, the other two genes, trTACC1A and trTACC1B are clearly most related to TACC1 (Fig. 1). Although trTACC1A is highly homologous to trTACC1B, the latter encodes a significantly smaller predicted protein. The trTACC1B gene is encoded by 15 exons over approximately 7 kb of the Takifugu Scaffold 191 (see below). A search of this region using the trTACC1A sequence and gene prediction software has so far failed to identify additional exons of trTACC1B. However, given the intron/exon structure of this apparently complete gene, it appears likely that trTACC1B is active in the pufferfish, and presumably fulfils either a temporal-spatial specific function within the organism, or a distinct function from the larger trTACC1A product within the cell. Thus, based upon the surrounding chromosomal loci (see below), the trTACC1A and trTACC1B genes appear to have arisen from the duplication of the chromosomal segment containing the teleost TACC1 ancestor, during the additional partial genomic duplication that occurred in the teleost lineage. Therefore, this analysis of T. rubripes does not support the hypothesis that the region surrounding the TACC3 ancestor was included in the second round of vertebrate genomic duplication."}

{"project":"craft-ca-core-dev","denotations":[{"id":"T1347","span":{"begin":19,"end":20},"obj":"SO:0001080"},{"id":"T1348","span":{"begin":29,"end":31},"obj":"NCBITaxon:7711"},{"id":"T1349","span":{"begin":58,"end":62},"obj":"SO:0000704"},{"id":"T1350","span":{"begin":85,"end":91},"obj":"SO:0001026"},{"id":"T1351","span":{"begin":99,"end":110},"obj":"NCBITaxon:7712"},{"id":"T1352","span":{"begin":111,"end":129},"obj":"NCBITaxon:7719"},{"id":"T1353","span":{"begin":188,"end":207},"obj":"NCBITaxon:7729"},{"id":"T1354","span":{"begin":208,"end":211},"obj":"SO:0000345"},{"id":"T1355","span":{"begin":284,"end":288},"obj":"SO:0000704"},{"id":"T1356","span":{"begin":308,"end":316},"obj":"NCBITaxon:7711"},{"id":"T1357","span":{"begin":372,"end":380},"obj":"NCBITaxon:7711"},{"id":"T1358","span":{"begin":381,"end":387},"obj":"SO:0001026"},{"id":"T1359","span":{"begin":495,"end":503},"obj":"NCBITaxon:7711"},{"id":"T1360","span":{"begin":504,"end":510},"obj":"SO:0001026"},{"id":"T1361","span":{"begin":585,"end":590},"obj":"SO:0000704"},{"id":"T1362","span":{"begin":661,"end":666},"obj":"SO:0000704"},{"id":"T1363","span":{"begin":699,"end":709},"obj":"NCBITaxon:7742"},{"id":"T1364","span":{"begin":710,"end":716},"obj":"SO:0001026"},{"id":"T1365","span":{"begin":740,"end":750},"obj":"NCBITaxon:31031"},{"id":"T1366","span":{"begin":751,"end":768},"obj":"NCBITaxon:31033"},{"id":"T1367","span":{"begin":781,"end":786},"obj":"SO:0000704"},{"id":"T1368","span":{"begin":808,"end":813},"obj":"NCBITaxon:9606"},{"id":"T1369","span":{"begin":814,"end":819},"obj":"PR:000016006"},{"id":"T1370","span":{"begin":867,"end":874},"obj":"SO:0001026"},{"id":"T1371","span":{"begin":924,"end":929},"obj":"SO:0000704"},{"id":"T1372","span":{"begin":967,"end":971},"obj":"SO:0000704"},{"id":"T1373","span":{"begin":990,"end":995},"obj":"PR:000016008"},{"id":"T1374","span":{"begin":1024,"end":1029},"obj":"SO:0000704"},{"id":"T1375","span":{"begin":1049,"end":1060},"obj":"NCBITaxon:31033"},{"id":"T1376","span":{"begin":1076,"end":1081},"obj":"SO:0000704"},{"id":"T1377","span":{"begin":1102,"end":1113},"obj":"NCBITaxon:31033"},{"id":"T1378","span":{"begin":1114,"end":1125},"obj":"SO:0000855"},{"id":"T1379","span":{"begin":1129,"end":1134},"obj":"NCBITaxon:9606"},{"id":"T1380","span":{"begin":1135,"end":1140},"obj":"PR:000016007"},{"id":"T1381","span":{"begin":1145,"end":1150},"obj":"PR:000016008"},{"id":"T1382","span":{"begin":1175,"end":1180},"obj":"SO:0000704"},{"id":"T1383","span":{"begin":1232,"end":1237},"obj":"PR:000016006"},{"id":"T1384","span":{"begin":1276,"end":1286},"obj":"SO:0000857"},{"id":"T1385","span":{"begin":1375,"end":1379},"obj":"SO:0000704"},{"id":"T1386","span":{"begin":1397,"end":1402},"obj":"SO:0000147"},{"id":"T1387","span":{"begin":1434,"end":1442},"obj":"NCBITaxon:31032"},{"id":"T1388","span":{"begin":1443,"end":1451},"obj":"SO:0001248"},{"id":"T1389","span":{"begin":1525,"end":1529},"obj":"SO:0000704"},{"id":"T1390","span":{"begin":1591,"end":1596},"obj":"SO:0000147"},{"id":"T1391","span":{"begin":1629,"end":1635},"obj":"SO:0000188"},{"id":"T1392","span":{"begin":1636,"end":1640},"obj":"SO:0000147"},{"id":"T1393","span":{"begin":1679,"end":1683},"obj":"SO:0000704"},{"id":"T1394","span":{"begin":1734,"end":1744},"obj":"NCBITaxon:31031"},{"id":"T1395","span":{"begin":1824,"end":1832},"obj":"NCBITaxon:1"},{"id":"T1396","span":{"begin":1996,"end":2001},"obj":"SO:0000704"},{"id":"T1397","span":{"begin":2087,"end":2094},"obj":"NCBITaxon:32443"},{"id":"T1398","span":{"begin":2095,"end":2100},"obj":"PR:000016006"},{"id":"T1399","span":{"begin":2141,"end":2148},"obj":"SO:0001026"},{"id":"T1400","span":{"begin":2182,"end":2189},"obj":"NCBITaxon:32443"},{"id":"T1401","span":{"begin":2227,"end":2238},"obj":"NCBITaxon:31033"},{"id":"T1402","span":{"begin":2303,"end":2308},"obj":"PR:000016008"},{"id":"T1403","span":{"begin":2354,"end":2364},"obj":"NCBITaxon:7742"},{"id":"T1404","span":{"begin":2365,"end":2372},"obj":"SO:0001026"}],"text":"At the base of the chordate branch of life, a single TACC gene was identified in the genome of the urochordate Ciona intestinalis [11], and a partial TACC sequence from an analysis of the Halocynthia rortezi EST database [12]. This confirms the original assumption that a single TACC gene was present in the chordate ancestor. The next major event in the evolution of the chordate genome has been suggested to have occurred 687 ± 155.7 million years ago (MYA), with the first duplication of the chordate genome, and a second duplication occurring shortly thereafter. Thus, if the TACC genes were duplicated at both events, we would expect to identify four TACC genes in the most \"primitive\" compact vertebrate genome sequenced to date, the pufferfish Takifugu rubripes, with three genes corresponding to the human TACC1-3, and, in keeping with the proposed model for genomic duplication of the chromosomal loci for the TACC genes (discussed below), a possible fourth gene deriving from the TACC3 ancestor. Indeed, four TACC genes were identified in T. rubripes. Of these, two genes corresponded to the T. rubripes orthologues of human TACC2 and TACC3. However, the other two genes, trTACC1A and trTACC1B are clearly most related to TACC1 (Fig. 1). Although trTACC1A is highly homologous to trTACC1B, the latter encodes a significantly smaller predicted protein. The trTACC1B gene is encoded by 15 exons over approximately 7 kb of the Takifugu Scaffold 191 (see below). A search of this region using the trTACC1A sequence and gene prediction software has so far failed to identify additional exons of trTACC1B. However, given the intron/exon structure of this apparently complete gene, it appears likely that trTACC1B is active in the pufferfish, and presumably fulfils either a temporal-spatial specific function within the organism, or a distinct function from the larger trTACC1A product within the cell. Thus, based upon the surrounding chromosomal loci (see below), the trTACC1A and trTACC1B genes appear to have arisen from the duplication of the chromosomal segment containing the teleost TACC1 ancestor, during the additional partial genomic duplication that occurred in the teleost lineage. Therefore, this analysis of T. rubripes does not support the hypothesis that the region surrounding the TACC3 ancestor was included in the second round of vertebrate genomic duplication."}

{"project":"2_test","denotations":[{"id":"15207008-12481130-9665992","span":{"begin":131,"end":133},"obj":"12481130"},{"id":"15207008-11752271-9665993","span":{"begin":222,"end":224},"obj":"11752271"}],"text":"At the base of the chordate branch of life, a single TACC gene was identified in the genome of the urochordate Ciona intestinalis [11], and a partial TACC sequence from an analysis of the Halocynthia rortezi EST database [12]. This confirms the original assumption that a single TACC gene was present in the chordate ancestor. The next major event in the evolution of the chordate genome has been suggested to have occurred 687 ± 155.7 million years ago (MYA), with the first duplication of the chordate genome, and a second duplication occurring shortly thereafter. Thus, if the TACC genes were duplicated at both events, we would expect to identify four TACC genes in the most \"primitive\" compact vertebrate genome sequenced to date, the pufferfish Takifugu rubripes, with three genes corresponding to the human TACC1-3, and, in keeping with the proposed model for genomic duplication of the chromosomal loci for the TACC genes (discussed below), a possible fourth gene deriving from the TACC3 ancestor. Indeed, four TACC genes were identified in T. rubripes. Of these, two genes corresponded to the T. rubripes orthologues of human TACC2 and TACC3. However, the other two genes, trTACC1A and trTACC1B are clearly most related to TACC1 (Fig. 1). Although trTACC1A is highly homologous to trTACC1B, the latter encodes a significantly smaller predicted protein. The trTACC1B gene is encoded by 15 exons over approximately 7 kb of the Takifugu Scaffold 191 (see below). A search of this region using the trTACC1A sequence and gene prediction software has so far failed to identify additional exons of trTACC1B. However, given the intron/exon structure of this apparently complete gene, it appears likely that trTACC1B is active in the pufferfish, and presumably fulfils either a temporal-spatial specific function within the organism, or a distinct function from the larger trTACC1A product within the cell. Thus, based upon the surrounding chromosomal loci (see below), the trTACC1A and trTACC1B genes appear to have arisen from the duplication of the chromosomal segment containing the teleost TACC1 ancestor, during the additional partial genomic duplication that occurred in the teleost lineage. Therefore, this analysis of T. rubripes does not support the hypothesis that the region surrounding the TACC3 ancestor was included in the second round of vertebrate genomic duplication."}