Connect Emerging Assemblies in Triticeae by Genes
Species Assemblies Coding Genes Collinear Blocks
28 108 8.5M 15.0M
If use TGT in pulication, please cite:
Yongming Chen, Wanjun Song, Xiaoming Xie, Zihao Wang, Panfeng Guan, Huiru Peng, Yuannian Jiao, Zhongfu Ni, Qixin Sun, and Weilong Guo. (2020) A Collinearity-incorporating Homology Inference Strategy for Connecting Emerging Assemblies in Triticeae Tribe as a Pilot Practice in the Plant Pangenomic Era. Molecular Plant, 13, 1694–1708.

News

  • Jan. 7, 2025   New genome: 17 genomes in wheat pangenome project, Triticum aestivum Z8425B, Triticum timopheevii PI94760, three Aegilops tauschii, Aegilops umbellulata PI554389, Aegilops comosa PI551049, and Elymus sibiricus genome

  • Dec. 2, 2023   New genome: Triticum monococcum PI306540

  • Nov. 8, 2023   New genome: Triticum aestivum accession AiKang58, Aegilops umbellulata, and Leymus chinensis

  • Sep. 12, 2023   The article (Chen et al., Molecular Plant, 2020) has been cited more than 100 times

  • Aug. 6, 2023   New genome: genomes of Triticum monococcum subsp. monococcum and T. monococcum subsp. aegilopoides

  • Jul. 29, 2023   New genome: Sorghum bicolor genome annotation

  • Apr. 7, 2023   New genome: Dasypyrum villosum and Aegilops speltoides (Y2032). The TreePlot tool can split genes into homologous group now.

  • Aug. 15, 2022   New genome: barley Morex v3 and wheat Kenong9204 genome annotation

  • May. 22, 2022   New genome: wheat Renan and sea barleygrass genome annotation

  • Mar. 20, 2022   New genome: wheat Kariega genome annotation

  • Jan. 29, 2022   New genome: genomes and annotations of Aegilops species

  • Jul. 24, 2021   New genome: wheat Fielder genome annotation

  • Jun. 1, 2021   New genome: Aegilops tauschii pangenome genome annotation

  • May. 11, 2021   New genome: oat v2 genome annotation

  • Apr. 30, 2021   New genome: IWGSC RefSeqv2.1 genome annotation

  • Mar. 28, 2021   New annotation page is now availity, and the "MicroCollinearity" has been updated

  • Mar. 21, 2021   New genome: rye genome annotation

  • Jan. 29, 2021   New genome: barley pangenome project genome annotation

  • Dec. 27, 2020   The "MicroCollinearity" has been updated

  • Nov. 26, 2020   New genome: 10+ genome project genome annotation

  • Oct. 12, 2020   New genome: Triticum urartu ASM34745v1 and Brachypodium distachyon IBI v3.0 genome annotation

  • Oct. 8, 2020   New genome: the Tibetan wheat Zang1817 genome annotation

  • Sep. 23, 2020   Cheers! The paper is published in Molecular Plant

  • Aug. 5, 2020   The "By Symbol Name", which can search gene of Triticeae by well-stueied gene of rice, maize, and Arabidopsis, is now available

  • May. 7, 2020   The "MacroCollinearity", which can show collinearity in macro-region, is now available

  • Apr. 15, 2020   The "MicroCollinearity", which can show collinearity in micro-region, is now available

  • Nov. 6, 2019   The "GeneDescription", which can search function annotation and position, is now available

  • Aug. 9, 2019   Triticeae-GeneTribe (TGT) database is now open

Homologues

Homologues

Gene Description

GeneDescription
GeneDescription

Gene Ontology

GOEnrichment

Gene Pair

GenePair

MacroCollinearity

MacroCollinearity

MicroCollinearity

MicroCollinearity
 
Currently available reference genomes and annotations
Species Genomes Accessions Annotation Versions Genes References
Triticum aestivum BBAADD Chinese Spring IWGSC RefSeqv1.1 107,891 IWGSC, Science, 2018
Triticum aestivum BBAADD Chinese Spring IWGSC RefSeqv1.0 107,891 IWGSC, Science, 2018
Triticum aestivum BBAADD Chinese Spring IWGSC RefSeqv2.1 106,913 Zhu et al., The Plant Journal, 2021
Triticum aestivum BBAADD Chinese Spring IWGSC CSS 100,344 IWGSC, Science, 2014
Triticum aestivum BBAADD Chinese Spring TGAC v1 104,091 Clavijo et al., Genome Research, 2017
Triticum aestivum BBAADD Chinese Spring CAU 151,405 Wang et al., Molecular Plant, 2025
Triticum aestivum BBAADD Zang1817 Zang1817 107,336 Guo et al., Nature Communications, 2020
Triticum aestivum BBAADD AK58 AK58 119,449 Jia et al., Molecular Plant, 2023
Triticum aestivum BBAADD Kenong9204 Kenong9204 105,692 Shi et al., Molecular Plant, 2022
Triticum aestivum BBAADD Fielder Fielder 116,480 Sato et al., DNA Research, 2021
Triticum aestivum BBAADD Z8425B Z8425B 105,329 Li et al., Plant Communications, 2024
Triticum aestivum BBAADD BJ8 BJ8 136,169 Jiao et al., Nature, 2024
Triticum aestivum BBAADD MZM MZM 135,896 Jiao et al., Nature, 2024
Triticum aestivum BBAADD XN6028 XN6028 136,471 Jiao et al., Nature, 2024
Triticum aestivum BBAADD Abo Abo 134,090 Jiao et al., Nature, 2024
Triticum aestivum BBAADD NC4 NC4 133,773 Jiao et al., Nature, 2024
Triticum aestivum BBAADD YM158 YM158 135,207 Jiao et al., Nature, 2024
Triticum aestivum BBAADD XY6 XY6 138,457 Jiao et al., Nature, 2024
Triticum aestivum BBAADD AMN AMN 135,639 Jiao et al., Nature, 2024
Triticum aestivum BBAADD JM47 JM47 136,282 Jiao et al., Nature, 2024
Triticum aestivum BBAADD S4185 S4185 134,130 Jiao et al., Nature, 2024
Triticum aestivum BBAADD CM42 CM42 133,391 Jiao et al., Nature, 2024
Triticum aestivum BBAADD JM22 JM22 134,424 Jiao et al., Nature, 2024
Triticum aestivum BBAADD KF11 KF11 133,789 Jiao et al., Nature, 2024
Triticum aestivum BBAADD ZM366 ZM366 135,296 Jiao et al., Nature, 2024
Triticum aestivum BBAADD ZM16 ZM16 136,271 Jiao et al., Nature, 2024
Triticum aestivum BBAADD ZM22 ZM22 135,054 Jiao et al., Nature, 2024
Triticum aestivum BBAADD HD6172 HD6172 138,709 Jiao et al., Nature, 2024
Triticum aestivum BBAADD Julius 10+Genome Julius 115,552 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD CDC Landmark 10+Genome CDC Landmark 115,515 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Jagger 10+Genome Jagger 115,873 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD ArinaLrFor 10+Genome ArinaLrFor 117,569 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD CDC Stanley 10+Genome CDC Stanley 115,781 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD SY Mattis 10+Genome SY Mattis 117,276 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD LongReach Lancer 10+Genome LongReach Lancer 116,473 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Mace 10+Genome Mace 116,367 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Norin61 10+Genome Norin61 116,106 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Kariega Kariega 116,839 Athiyannan et al., Nature Genetics, 2022
Triticum aestivum BBAADD Renan Renan 109,552 Aury et al., GigaScience, 2022
Triticum aestivum BBAADD Cadenza 10+Genome Cadenza 122,839 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Claire 10+Genome Claire 121,770 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Paragon 10+Genome Paragon 121,570 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Robigus 10+Genome Robigus 121,526 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Weebill 10+Genome Weebill 122,647 Walkowiak et al., Nature, 2020
Triticum aestivum BBAADD Attraktion Not available Not available Kale et al., Plant Biotechnology Journal, 2022
Triticum aestivum BBAADD Sonmez Not available Not available Akpinar et al., F1000Research, 2022
Triticum spelta BBAADD PI190962 10+Genome PI190962 116,395 Walkowiak et al., Nature, 2020
Triticum durum BBAA Svevo Svevo v1 66,559 Maccaferri et al., Nature Genetics, 2019
Triticum dicoccoides BBAA Zavitan WEWSeq v1.0 65,012 Avni et al., Science, 2017
Triticum dicoccoides BBAA Zavitan WEWSeq v2.0 88,039 Zhu et al., G3, 2019
Triticum timopheevii AtAtGG PI94760 PI94760 70365 Grewal et al., Scientific Data, 2024
Triticum urartu AA G1812 Tu 2.0 37,516 Ling et al., Nature, 2018
Triticum urartu AA G1812 ASM34745v1 34,903 Ling et al., Nature, 2013
Triticum monococcum AmAm PI306540 PI306540 37,313 Wang et al., Plant Communications, 2024
Triticum monococcum AmAm TA10622 TA10622 39,073 Ahmed et al., Nature, 2023
Triticum aegilopoides AmAm TA299 TA299 40,135 Ahmed et al., Nature, 2023
Aegilops speltoides SspSsp TS01 TS01 37,607 Li et al., Molecular Plant, 2022
Aegilops speltoides SspSsp AEG-9674-1 AEG-9674-1 36,928 Avni et al., The Plant Journal, 2022
Aegilops speltoides SspSsp Y2032 Y2032 46,348 Yang et al., Plant Communications, 2023
Aegilops ventricosa DvDvNvNv RM271 Not available Not available Liu et al., Plant Communications, 2024
Aegilops tauschii DD AL8/78 Aet v4.0 39,622 Luo et al., Nature, 2017
Aegilops tauschii DD AL8/78 ASM34733v2 42,828 Zhao et al., Nature Plants, 2017
Aegilops tauschii DD AY17 AY17 43,730 Zhou et al., Nature Plants, 2021
Aegilops tauschii DD AY61 AY61 44,513 Zhou et al., Nature Plants, 2021
Aegilops tauschii DD T093 T093 44,419 Zhou et al., Nature Plants, 2021
Aegilops tauschii DD XJ02 XJ02 43,902 Zhou et al., Nature Plants, 2021
Aegilops tauschii DD TA10171 TA10171 44,275 Cavalet-Giorsa et al., Nature, 2024
Aegilops tauschii DD TA1675 TA1675 43,511 Cavalet-Giorsa et al., Nature, 2024
Aegilops tauschii DD TA2576 TA2576 43,786 Cavalet-Giorsa et al., Nature, 2024
Aegilops searsii SseSse TE01 TE01 37,995 Li et al., Molecular Plant, 2022
Aegilops bicornis SbSb TB01 TB01 40,222 Li et al., Molecular Plant, 2022
Aegilops longissima SlSl TL05 TL05 37,201 Li et al., Molecular Plant, 2022
Aegilops longissima SlSl AEG-6782-2 AEG-6782-2 31,183 Avni et al., The Plant Journal, 2022
Aegilops sharonensis SshSsh TH02 TH02 38,440 Li et al., Molecular Plant, 2022
Aegilops sharonensis SshSsh AS 1644 AS 1644 31,198 Avni et al., The Plant Journal, 2022
Aegilops umbellulata UU TA1851 TA1851 36,268 Abrouk et al., Scientific Data, 2023
Aegilops umbellulata UU PI554389 PI554389 23,771 Singh et al., Plant Biotechnology Journal, 2024
Aegilops comosa MM PI551049 PI551049 39,057 Li et al., Scientific Data, 2024
Ambylopyrum muticum TT 2130012 Not available Not available Coombes et al., Plant Biotechnology Journal, 2022
Thinopyrum elongatum EE PI531718 SDAU v1 44,474 Wang et al., Science, 2020
Secale cereale RR Weining Weining v1 43,928 Li et al., Nature Genetics, 2021
Secale cereale RR Lo7 Lo7 34,441 Rabanus-Wallace et al., Nature Genetics, 2021
Dasypyrum villosum VV 91C43 91C43 39,727 Zhang et al., Molecular Plant, 2023
Leymus chinensis NsNsXmXm Lc6-5 Lc6-5 84,641 Li et al., PNAS, 2023
Elymus sibiricus StStHH Gaomu 1 Gaomu 1 89,800 Shen et al., Scientific Data, 2024
Hordeum vulgare HH Morex IBSC v1 39,734 Mascher et al., Nature, 2017
Hordeum vulgare HH Morex Morex v3 35,827 Mascher et al., The Plant Cell, 2021
Hordeum vulgare HH Morex Pangenome Morex 49,281 Jayakodi et al., Nature, 2020
Hordeum vulgare HH Akashinriki Pangenome Akashinriki 47,159 Jayakodi et al., Nature, 2020
Hordeum vulgare HH B1K-04-12 Pangenome B1K-04-12 47,587 Jayakodi et al., Nature, 2020
Hordeum vulgare HH Barke Pangenome Barke 48,212 Jayakodi et al., Nature, 2020
Hordeum vulgare HH Golden Promise Pangenome Golden Promise 45,084 Jayakodi et al., Nature, 2020
Hordeum vulgare HH Hockett Pangenome Hockett 48,779 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR10350 Pangenome HOR10350 48,007 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR13821 Pangenome HOR13821 47,178 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR13942 Pangenome HOR13942 47,257 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR21599 Pangenome HOR21599 47,080 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR3081 Pangenome HOR3081 47,599 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR3365 Pangenome HOR3365 50,032 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR7552 Pangenome HOR7552 47,337 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR8148 Pangenome HOR8148 47,461 Jayakodi et al., Nature, 2020
Hordeum vulgare HH HOR9043 Pangenome HOR9043 47,395 Jayakodi et al., Nature, 2020
Hordeum vulgare HH Igri Pangenome Igri 47,608 Jayakodi et al., Nature, 2020
Hordeum vulgare HH OUN333 Pangenome OUN333 47,277 Jayakodi et al., Nature, 2020
Hordeum vulgare HH RGT Planet Pangenome RGT Planet 47,743 Jayakodi et al., Nature, 2020
Hordeum vulgare HH ZDM01467 Pangenome ZDM01467 47,408 Jayakodi et al., Nature, 2020
Hordeum vulgare HH ZDM02064 Pangenome ZDM02064 47,794 Jayakodi et al., Nature, 2020
Hordeum vulgare HH qingke Zangqing320 Not available Not available Dai et al., Plant Biotechnology Journal, 2017
Hordeum vulgare HH 76 genomes 76 genomes ~49914 Jayakodi et al., Nature, 2024
Hordeum marinum XaXa H559 H559 41,045 Kuang et al., Plant Communications, 2022
Avena strigosa NN S75 OAT v2 39,885 Li et al., Nature Communications, 2021
Brachypodium distachyon NN Bd21 IBI v3.0 34,310 IBI, Nature, 2010
Oryza sativa Japonica NN Nipponbare IRGSP 1.0 37,960 IRGSP, Nature, 2005
Sorghum bicolor NN BTx623 NCBIv3 34,027 McCormick et al., The Plant Journal, 2017
Zea mays NN B73 B73 RefGen v4 39,591 Schnable et al., Science, 2009
Arabidopsis thaliana NN Columbia TAIR10 27,655 AGI, Nature, 2000
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