The Naming of Names: Guidelines for Gene Nomenclature in Marchantia

doi:10.1093/pcp/pcv193

Review

. 2016 Feb;57(2):257-61.

doi: 10.1093/pcp/pcv193. Epub 2015 Dec 7.

The Naming of Names: Guidelines for Gene Nomenclature in Marchantia

John L Bowman¹, Takashi Araki², Mario A Arteaga-Vazquez³, Frederic Berger⁴, Liam Dolan⁵, Jim Haseloff⁶, Kimitsune Ishizaki⁷, Junko Kyozuka⁸, Shih-Shun Lin⁹, Hideki Nagasaki¹⁰, Hirofumi Nakagami¹¹, Keiji Nakajima¹², Yasukazu Nakamura¹³, Kyoko Ohashi-Ito¹⁴, Shinichiro Sawa¹⁵, Masaki Shimamura¹⁶, Roberto Solano¹⁷, Hirokazu Tsukaya¹⁸, Takashi Ueda¹⁹, Yuichiro Watanabe²⁰, Katsuyuki T Yamato²¹, Sabine Zachgo²², Takayuki Kohchi²³

Affiliations

¹ School of Biological Sciences, Monash University, Melbourne, Victoria 3800, Australia john.bowman@monash.edu tkohchi@lif.kyoto-u.ac.jp.
² Graduate School of Biostudies, Kyoto University, Kyoto, 606-8502 Japan.
³ University of Veracruz, Institute for Biotechnology and Applied Ecology (INBIOTECA), Avenida de las Culturas Veracruzanas 101, Colonia Emiliano Zapata 91090, Xalapa, Veracruz, México.
⁴ Gregor Mendel Institute, Dr. Bohrgasse 3, 1030 Vienna, Austria.
⁵ Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK.
⁶ Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge CB2 3EA, UK.
⁷ Graduate School of Science, Kobe University, 1-1 Rokkodai-cho, Nada-ku, Kobe, 657-8501 Japan.
⁸ Graduate School of Life Sciences, Tohoku University, 2-1-1, Katahira, Aoba-ku, Sendai, 980-8577 Japan.
⁹ Institute of Biotechnology, National Taiwan University, Taiwan.
¹⁰ School of Biological Sciences, Monash University, Melbourne, Victoria 3800, Australia.
¹¹ RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045 Japan.
¹² Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192 Japan.
¹³ National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, 411-8540 Japan.
¹⁴ Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo, Tokyo, 113-0033 Japan.
¹⁵ Graduate School of Science and Technology, Kumamoto University, Kumamoto, 860-8555 Japan.
¹⁶ Department of Biological Science, Graduate School of Science, Hiroshima University, Kagami-yama, Higashi Hiroshima, Hiroshima, 739-8526 Japan.
¹⁷ Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnologia-CSIC, C/ Darwin, 3, Campus Cantoblanco, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
¹⁸ Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo, Tokyo, 113-0033 Japan Okazaki Institute for Integrative Bioscience, National Institute of Natural Sciences, 5-1, Higashiyama, Okazaki, Aichi, 444-8787 Japan.
¹⁹ Laboratory of Developmental Cell Biology, Department of Biological Sciences, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033 Japan.
²⁰ Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1, Komaba, Meguro, Tokyo, 153-8902 Japan.
²¹ Faculty of Biology-Oriented Science and Technology, Kinki University, Nishimitani, Kinokawa, Wakayama, 649-6493 Japan.
²² University of Osnabrück, Botany Department, Barbarastr. 11, D-49076 Osnabrück, Germany.
²³ Graduate School of Biostudies, Kyoto University, Kyoto, 606-8502 Japan john.bowman@monash.edu tkohchi@lif.kyoto-u.ac.jp.

PMID: 26644462
PMCID: PMC4788412
DOI: 10.1093/pcp/pcv193

Review

The Naming of Names: Guidelines for Gene Nomenclature in Marchantia

John L Bowman et al. Plant Cell Physiol. 2016 Feb.

. 2016 Feb;57(2):257-61.

doi: 10.1093/pcp/pcv193. Epub 2015 Dec 7.

Authors

Affiliations

¹ School of Biological Sciences, Monash University, Melbourne, Victoria 3800, Australia john.bowman@monash.edu tkohchi@lif.kyoto-u.ac.jp.
² Graduate School of Biostudies, Kyoto University, Kyoto, 606-8502 Japan.
³ University of Veracruz, Institute for Biotechnology and Applied Ecology (INBIOTECA), Avenida de las Culturas Veracruzanas 101, Colonia Emiliano Zapata 91090, Xalapa, Veracruz, México.
⁴ Gregor Mendel Institute, Dr. Bohrgasse 3, 1030 Vienna, Austria.
⁵ Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK.
⁶ Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge CB2 3EA, UK.
⁷ Graduate School of Science, Kobe University, 1-1 Rokkodai-cho, Nada-ku, Kobe, 657-8501 Japan.
⁸ Graduate School of Life Sciences, Tohoku University, 2-1-1, Katahira, Aoba-ku, Sendai, 980-8577 Japan.
⁹ Institute of Biotechnology, National Taiwan University, Taiwan.
¹⁰ School of Biological Sciences, Monash University, Melbourne, Victoria 3800, Australia.
¹¹ RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045 Japan.
¹² Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192 Japan.
¹³ National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, 411-8540 Japan.
¹⁴ Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo, Tokyo, 113-0033 Japan.
¹⁵ Graduate School of Science and Technology, Kumamoto University, Kumamoto, 860-8555 Japan.
¹⁶ Department of Biological Science, Graduate School of Science, Hiroshima University, Kagami-yama, Higashi Hiroshima, Hiroshima, 739-8526 Japan.
¹⁷ Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnologia-CSIC, C/ Darwin, 3, Campus Cantoblanco, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
¹⁸ Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo, Tokyo, 113-0033 Japan Okazaki Institute for Integrative Bioscience, National Institute of Natural Sciences, 5-1, Higashiyama, Okazaki, Aichi, 444-8787 Japan.
¹⁹ Laboratory of Developmental Cell Biology, Department of Biological Sciences, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033 Japan.
²⁰ Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1, Komaba, Meguro, Tokyo, 153-8902 Japan.
²¹ Faculty of Biology-Oriented Science and Technology, Kinki University, Nishimitani, Kinokawa, Wakayama, 649-6493 Japan.
²² University of Osnabrück, Botany Department, Barbarastr. 11, D-49076 Osnabrück, Germany.
²³ Graduate School of Biostudies, Kyoto University, Kyoto, 606-8502 Japan john.bowman@monash.edu tkohchi@lif.kyoto-u.ac.jp.

PMID: 26644462
PMCID: PMC4788412
DOI: 10.1093/pcp/pcv193

Abstract

While Marchantia polymorpha has been utilized as a model system to investigate fundamental biological questions for over almost two centuries, there is renewed interest in M. polymorpha as a model genetic organism in the genomics era. Here we outline community guidelines for M. polymorpha gene and transgene nomenclature, and we anticipate that these guidelines will promote consistency and reduce both redundancy and confusion in the scientific literature.

Keywords: Gene nomenclature; Liverwort; Marchantia polymorpha; Model organism.

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References

1. Bauhin C. (1623) Pinax Theatri botanici Caspari Bauhini. Ludovici Regis, Basileae Helvet.
1. Bischler-Causse H. (1993) Marchantia L. The European and African taxa. J. Cramer, Berlin-Stuttgart.
1. Bischler-Causse H., Boisselier-Dubayle M.-C. (1991) Lectotypification of Marchantia polymorpha L. J. Bryol. 16: 361–365.
1. Boisselier-Dubayle M.-C., Jubier M.F., Lejeune B., Bischler H. (1995) Genetic variability in the three subspecies of Marchantia polymorpha (Hepaticae)—isozymes, RFLP and RAPD markers. Taxon 44: 363–376.
1. Bowman J.L. (2016) A brief history of Marchantia from Greece to genomics. Plant Cell Physiol. 57: In press. - PubMed

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[1] Bauhin C. (1623) Pinax Theatri botanici Caspari Bauhini. Ludovici Regis, Basileae Helvet.

[2] Bauhin C. (1623) Pinax Theatri botanici Caspari Bauhini. Ludovici Regis, Basileae Helvet.

[3] Bischler-Causse H. (1993) Marchantia L. The European and African taxa. J. Cramer, Berlin-Stuttgart.

[4] Bischler-Causse H. (1993) Marchantia L. The European and African taxa. J. Cramer, Berlin-Stuttgart.

[5] Bischler-Causse H., Boisselier-Dubayle M.-C. (1991) Lectotypification of Marchantia polymorpha L. J. Bryol. 16: 361–365.

[6] Bischler-Causse H., Boisselier-Dubayle M.-C. (1991) Lectotypification of Marchantia polymorpha L. J. Bryol. 16: 361–365.

[7] Boisselier-Dubayle M.-C., Jubier M.F., Lejeune B., Bischler H. (1995) Genetic variability in the three subspecies of Marchantia polymorpha (Hepaticae)—isozymes, RFLP and RAPD markers. Taxon 44: 363–376.

[8] Boisselier-Dubayle M.-C., Jubier M.F., Lejeune B., Bischler H. (1995) Genetic variability in the three subspecies of Marchantia polymorpha (Hepaticae)—isozymes, RFLP and RAPD markers. Taxon 44: 363–376.

[9] Bowman J.L. (2016) A brief history of Marchantia from Greece to genomics. Plant Cell Physiol. 57: In press. - PubMed

[10] Bowman J.L. (2016) A brief history of Marchantia from Greece to genomics. Plant Cell Physiol. 57: In press. - PubMed

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The Naming of Names: Guidelines for Gene Nomenclature in Marchantia

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The Naming of Names: Guidelines for Gene Nomenclature in Marchantia

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