Literature DB >> 24336862

The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes.

Heather Bracken-Grissom, Allen G Collins, Timothy Collins, Keith Crandall, Daniel Distel, Casey Dunn, Gonzalo Giribet, Steven Haddock, Nancy Knowlton, Mark Martindale, Mónica Medina, Charles Messing, Stephen J O'Brien, Gustav Paulay, Nicolas Putnam, Timothy Ravasi, Greg W Rouse, Joseph F Ryan, Anja Schulze, Gert Wörheide, Maja Adamska, Xavier Bailly, Jesse Breinholt, William E Browne, M Christina Diaz, Nathaniel Evans, Jean-François Flot, Nicole Fogarty, Matthew Johnston, Bishoy Kamel, Akito Y Kawahara, Tammy Laberge, Dennis Lavrov, François Michonneau, Leonid L Moroz, Todd Oakley, Karen Osborne, Shirley A Pomponi, Adelaide Rhodes, Scott R Santos, Nori Satoh, Robert W Thacker, Yves Van de Peer, Christian R Voolstra, David Mark Welch, Judith Winston, Xin Zhou.   

Abstract

Over 95% of all metazoan (animal) species comprise the "invertebrates," but very few genomes from these organisms have been sequenced. We have, therefore, formed a "Global Invertebrate Genomics Alliance" (GIGA). Our intent is to build a collaborative network of diverse scientists to tackle major challenges (e.g., species selection, sample collection and storage, sequence assembly, annotation, analytical tools) associated with genome/transcriptome sequencing across a large taxonomic spectrum. We aim to promote standards that will facilitate comparative approaches to invertebrate genomics and collaborations across the international scientific community. Candidate study taxa include species from Porifera, Ctenophora, Cnidaria, Placozoa, Mollusca, Arthropoda, Echinodermata, Annelida, Bryozoa, and Platyhelminthes, among others. GIGA will target 7000 noninsect/nonnematode species, with an emphasis on marine taxa because of the unrivaled phyletic diversity in the oceans. Priorities for selecting invertebrates for sequencing will include, but are not restricted to, their phylogenetic placement; relevance to organismal, ecological, and conservation research; and their importance to fisheries and human health. We highlight benefits of sequencing both whole genomes (DNA) and transcriptomes and also suggest policies for genomic-level data access and sharing based on transparency and inclusiveness. The GIGA Web site (http://giga.nova.edu) has been launched to facilitate this collaborative venture.

Entities:  

Keywords:  GIGA; biodiversity; comparative genomics; consortium; evolution; invertebrates; metazoa

Mesh:

Year:  2014        PMID: 24336862      PMCID: PMC4072906          DOI: 10.1093/jhered/est084

Source DB:  PubMed          Journal:  J Hered        ISSN: 0022-1503            Impact factor:   2.645


  119 in total

1.  Miniature genome in the marine chordate Oikopleura dioica.

Authors:  H C Seo; M Kube; R B Edvardsen; M F Jensen; A Beck; E Spriet; G Gorsky; E M Thompson; H Lehrach; R Reinhardt; D Chourrout
Journal:  Science       Date:  2001-12-21       Impact factor: 47.728

Review 2.  Marine natural products.

Authors:  D John Faulkner
Journal:  Nat Prod Rep       Date:  2002-02       Impact factor: 13.423

3.  Field preservation of marine invertebrate tissue for DNA analyses.

Authors:  M N Dawson; K A Raskoff; D K Jacobs
Journal:  Mol Mar Biol Biotechnol       Date:  1998

4.  The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins.

Authors:  Paramvir Dehal; Yutaka Satou; Robert K Campbell; Jarrod Chapman; Bernard Degnan; Anthony De Tomaso; Brad Davidson; Anna Di Gregorio; Maarten Gelpke; David M Goodstein; Naoe Harafuji; Kenneth E M Hastings; Isaac Ho; Kohji Hotta; Wayne Huang; Takeshi Kawashima; Patrick Lemaire; Diego Martinez; Ian A Meinertzhagen; Simona Necula; Masaru Nonaka; Nik Putnam; Sam Rash; Hidetoshi Saiga; Masanobu Satake; Astrid Terry; Lixy Yamada; Hong-Gang Wang; Satoko Awazu; Kaoru Azumi; Jeffrey Boore; Margherita Branno; Stephen Chin-Bow; Rosaria DeSantis; Sharon Doyle; Pilar Francino; David N Keys; Shinobu Haga; Hiroko Hayashi; Kyosuke Hino; Kaoru S Imai; Kazuo Inaba; Shungo Kano; Kenji Kobayashi; Mari Kobayashi; Byung-In Lee; Kazuhiro W Makabe; Chitra Manohar; Giorgio Matassi; Monica Medina; Yasuaki Mochizuki; Steve Mount; Tomomi Morishita; Sachiko Miura; Akie Nakayama; Satoko Nishizaka; Hisayo Nomoto; Fumiko Ohta; Kazuko Oishi; Isidore Rigoutsos; Masako Sano; Akane Sasaki; Yasunori Sasakura; Eiichi Shoguchi; Tadasu Shin-i; Antoinetta Spagnuolo; Didier Stainier; Miho M Suzuki; Olivier Tassy; Naohito Takatori; Miki Tokuoka; Kasumi Yagi; Fumiko Yoshizaki; Shuichi Wada; Cindy Zhang; P Douglas Hyatt; Frank Larimer; Chris Detter; Norman Doggett; Tijana Glavina; Trevor Hawkins; Paul Richardson; Susan Lucas; Yuji Kohara; Michael Levine; Nori Satoh; Daniel S Rokhsar
Journal:  Science       Date:  2002-12-13       Impact factor: 47.728

Review 5.  Urochordates are monophyletic within the deuterostomes.

Authors:  B J Swalla; C B Cameron; L S Corley; J R Garey
Journal:  Syst Biol       Date:  2000-03       Impact factor: 15.683

Review 6.  A new biology for a new century.

Authors:  Carl R Woese
Journal:  Microbiol Mol Biol Rev       Date:  2004-06       Impact factor: 11.056

Review 7.  Conservation genomics: applying whole genome studies to species conservation efforts.

Authors:  O A Ryder
Journal:  Cytogenet Genome Res       Date:  2005       Impact factor: 1.636

8.  Placozoa -- no longer a phylum of one.

Authors:  Oliver Voigt; Allen G Collins; Vicki Buchsbaum Pearse; John S Pearse; Andrea Ender; Heike Hadrys; Bernd Schierwater
Journal:  Curr Biol       Date:  2004-11-23       Impact factor: 10.834

9.  Comparative genomics of the eukaryotes.

Authors:  G M Rubin; M D Yandell; J R Wortman; G L Gabor Miklos; C R Nelson; I K Hariharan; M E Fortini; P W Li; R Apweiler; W Fleischmann; J M Cherry; S Henikoff; M P Skupski; S Misra; M Ashburner; E Birney; M S Boguski; T Brody; P Brokstein; S E Celniker; S A Chervitz; D Coates; A Cravchik; A Gabrielian; R F Galle; W M Gelbart; R A George; L S Goldstein; F Gong; P Guan; N L Harris; B A Hay; R A Hoskins; J Li; Z Li; R O Hynes; S J Jones; P M Kuehl; B Lemaitre; J T Littleton; D K Morrison; C Mungall; P H O'Farrell; O K Pickeral; C Shue; L B Vosshall; J Zhang; Q Zhao; X H Zheng; S Lewis
Journal:  Science       Date:  2000-03-24       Impact factor: 47.728

10.  The genome sequence of Drosophila melanogaster.

Authors:  M D Adams; S E Celniker; R A Holt; C A Evans; J D Gocayne; P G Amanatides; S E Scherer; P W Li; R A Hoskins; R F Galle; R A George; S E Lewis; S Richards; M Ashburner; S N Henderson; G G Sutton; J R Wortman; M D Yandell; Q Zhang; L X Chen; R C Brandon; Y H Rogers; R G Blazej; M Champe; B D Pfeiffer; K H Wan; C Doyle; E G Baxter; G Helt; C R Nelson; G L Gabor; J F Abril; A Agbayani; H J An; C Andrews-Pfannkoch; D Baldwin; R M Ballew; A Basu; J Baxendale; L Bayraktaroglu; E M Beasley; K Y Beeson; P V Benos; B P Berman; D Bhandari; S Bolshakov; D Borkova; M R Botchan; J Bouck; P Brokstein; P Brottier; K C Burtis; D A Busam; H Butler; E Cadieu; A Center; I Chandra; J M Cherry; S Cawley; C Dahlke; L B Davenport; P Davies; B de Pablos; A Delcher; Z Deng; A D Mays; I Dew; S M Dietz; K Dodson; L E Doup; M Downes; S Dugan-Rocha; B C Dunkov; P Dunn; K J Durbin; C C Evangelista; C Ferraz; S Ferriera; W Fleischmann; C Fosler; A E Gabrielian; N S Garg; W M Gelbart; K Glasser; A Glodek; F Gong; J H Gorrell; Z Gu; P Guan; M Harris; N L Harris; D Harvey; T J Heiman; J R Hernandez; J Houck; D Hostin; K A Houston; T J Howland; M H Wei; C Ibegwam; M Jalali; F Kalush; G H Karpen; Z Ke; J A Kennison; K A Ketchum; B E Kimmel; C D Kodira; C Kraft; S Kravitz; D Kulp; Z Lai; P Lasko; Y Lei; A A Levitsky; J Li; Z Li; Y Liang; X Lin; X Liu; B Mattei; T C McIntosh; M P McLeod; D McPherson; G Merkulov; N V Milshina; C Mobarry; J Morris; A Moshrefi; S M Mount; M Moy; B Murphy; L Murphy; D M Muzny; D L Nelson; D R Nelson; K A Nelson; K Nixon; D R Nusskern; J M Pacleb; M Palazzolo; G S Pittman; S Pan; J Pollard; V Puri; M G Reese; K Reinert; K Remington; R D Saunders; F Scheeler; H Shen; B C Shue; I Sidén-Kiamos; M Simpson; M P Skupski; T Smith; E Spier; A C Spradling; M Stapleton; R Strong; E Sun; R Svirskas; C Tector; R Turner; E Venter; A H Wang; X Wang; Z Y Wang; D A Wassarman; G M Weinstock; J Weissenbach; S M Williams; K C Worley; D Wu; S Yang; Q A Yao; J Ye; R F Yeh; J S Zaveri; M Zhan; G Zhang; Q Zhao; L Zheng; X H Zheng; F N Zhong; W Zhong; X Zhou; S Zhu; X Zhu; H O Smith; R A Gibbs; E W Myers; G M Rubin; J C Venter
Journal:  Science       Date:  2000-03-24       Impact factor: 47.728

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  34 in total

Review 1.  Nervous systems and scenarios for the invertebrate-to-vertebrate transition.

Authors:  Nicholas D Holland
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2016-01-05       Impact factor: 6.237

Review 2.  Biodiversity Meets Neuroscience: From the Sequencing Ship (Ship-Seq) to Deciphering Parallel Evolution of Neural Systems in Omic's Era.

Authors:  Leonid L Moroz
Journal:  Integr Comp Biol       Date:  2015-07-10       Impact factor: 3.326

3.  Earth BioGenome Project: Sequencing life for the future of life.

Authors:  Harris A Lewin; Gene E Robinson; W John Kress; William J Baker; Jonathan Coddington; Keith A Crandall; Richard Durbin; Scott V Edwards; Félix Forest; M Thomas P Gilbert; Melissa M Goldstein; Igor V Grigoriev; Kevin J Hackett; David Haussler; Erich D Jarvis; Warren E Johnson; Aristides Patrinos; Stephen Richards; Juan Carlos Castilla-Rubio; Marie-Anne van Sluys; Pamela S Soltis; Xun Xu; Huanming Yang; Guojie Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2018-04-24       Impact factor: 11.205

4.  Improving Cancer Drug Discovery by Studying Cancer across the Tree of Life.

Authors:  Jason A Somarelli; Amy M Boddy; Heather L Gardner; Suzanne Bartholf DeWitt; Joanne Tuohy; Kate Megquier; Maya U Sheth; Shiaowen David Hsu; Jeffrey L Thorne; Cheryl A London; William C Eward
Journal:  Mol Biol Evol       Date:  2020-01-01       Impact factor: 16.240

Review 5.  Comparative immunogenomics of molluscs.

Authors:  Jonathan H Schultz; Coen M Adema
Journal:  Dev Comp Immunol       Date:  2017-03-18       Impact factor: 3.636

6.  Advancing Genomics through the Global Invertebrate Genomics Alliance (GIGA).

Authors:  Christian R Voolstra; Gert Wörheide; Jose V Lopez
Journal:  Invertebr Syst       Date:  2017-03-16       Impact factor: 2.583

7.  Predictability and parallelism in the contemporary evolution of hybrid genomes.

Authors:  Quinn K Langdon; Daniel L Powell; Bernard Kim; Shreya M Banerjee; Cheyenne Payne; Tristram O Dodge; Ben Moran; Paola Fascinetto-Zago; Molly Schumer
Journal:  PLoS Genet       Date:  2022-01-27       Impact factor: 5.917

8.  An Outsider's Perspective on Why We Climb Mountains and Why Projects Like the i5k Matter.

Authors:  David C Molik
Journal:  J Insect Sci       Date:  2022-07-01       Impact factor: 2.066

9.  AniProtDB: A Collection of Consistently Generated Metazoan Proteomes for Comparative Genomics Studies.

Authors:  Sofia N Barreira; Anh-Dao Nguyen; Mark T Fredriksen; Tyra G Wolfsberg; R Travis Moreland; Andreas D Baxevanis
Journal:  Mol Biol Evol       Date:  2021-09-27       Impact factor: 8.800

Review 10.  Evolution of glutamatergic signaling and synapses.

Authors:  Leonid L Moroz; Mikhail A Nikitin; Pavlin G Poličar; Andrea B Kohn; Daria Y Romanova
Journal:  Neuropharmacology       Date:  2021-07-31       Impact factor: 5.273

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