Literature DB >> 27376488

The life aquatic: advances in marine vertebrate genomics.

Joanna L Kelley1, Anthony P Brown1, Nina Overgaard Therkildsen2, Andrew D Foote3.   

Abstract

The ocean is hypothesized to be where life on earth originated, and subsequent evolutionary transitions between marine and terrestrial environments have been key events in the origin of contemporary biodiversity. Here, we review how comparative genomic approaches are an increasingly important aspect of understanding evolutionary processes, such as physiological and morphological adaptation to the diverse habitats within the marine environment. In addition, we highlight how population genomics has provided unprecedented resolution for population structuring, speciation and adaptation in marine environments, which can have a low cost of dispersal and few physical barriers to gene flow, and can thus support large populations. Building upon this work, we outline the applications of genomics tools to conservation and their relevance to assessing the wide-ranging impact of fisheries and climate change on marine species.

Mesh:

Year:  2016        PMID: 27376488     DOI: 10.1038/nrg.2016.66

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  91 in total

1.  Parallel amino acid replacements in the rhodopsins of the rockfishes (Sebastes spp.) associated with shifts in habitat depth.

Authors:  Arjun Sivasundar; S R Palumbi
Journal:  J Evol Biol       Date:  2010-03-24       Impact factor: 2.411

2.  Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

Authors:  F Tajima
Journal:  Genetics       Date:  1989-11       Impact factor: 4.562

3.  Convergent evolution of the genomes of marine mammals.

Authors:  Andrew D Foote; Yue Liu; Gregg W C Thomas; Tomáš Vinař; Jessica Alföldi; Jixin Deng; Shannon Dugan; Cornelis E van Elk; Margaret E Hunter; Vandita Joshi; Ziad Khan; Christie Kovar; Sandra L Lee; Kerstin Lindblad-Toh; Annalaura Mancia; Rasmus Nielsen; Xiang Qin; Jiaxin Qu; Brian J Raney; Nagarjun Vijay; Jochen B W Wolf; Matthew W Hahn; Donna M Muzny; Kim C Worley; M Thomas P Gilbert; Richard A Gibbs
Journal:  Nat Genet       Date:  2015-01-26       Impact factor: 38.330

4.  The hitch-hiking effect of a favourable gene.

Authors:  J M Smith; J Haigh
Journal:  Genet Res       Date:  1974-02       Impact factor: 1.588

5.  Larval dispersal connects fish populations in a network of marine protected areas.

Authors:  Serge Planes; Geoffrey P Jones; Simon R Thorrold
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-23       Impact factor: 11.205

6.  Baleen whales host a unique gut microbiome with similarities to both carnivores and herbivores.

Authors:  Jon G Sanders; Annabel C Beichman; Joe Roman; Jarrod J Scott; David Emerson; James J McCarthy; Peter R Girguis
Journal:  Nat Commun       Date:  2015-09-22       Impact factor: 14.919

7.  European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation.

Authors:  Mbaye Tine; Heiner Kuhl; Pierre-Alexandre Gagnaire; Bruno Louro; Erick Desmarais; Rute S T Martins; Jochen Hecht; Florian Knaust; Khalid Belkhir; Sven Klages; Roland Dieterich; Kurt Stueber; Francesc Piferrer; Bruno Guinand; Nicolas Bierne; Filip A M Volckaert; Luca Bargelloni; Deborah M Power; François Bonhomme; Adelino V M Canario; Richard Reinhardt
Journal:  Nat Commun       Date:  2014-12-23       Impact factor: 14.919

8.  Persistent leatherback turtle migrations present opportunities for conservation.

Authors:  George L Shillinger; Daniel M Palacios; Helen Bailey; Steven J Bograd; Alan M Swithenbank; Philippe Gaspar; Bryan P Wallace; James R Spotila; Frank V Paladino; Rotney Piedra; Scott A Eckert; Barbara A Block
Journal:  PLoS Biol       Date:  2008-07-15       Impact factor: 8.029

Review 9.  Next-generation sequence assembly: four stages of data processing and computational challenges.

Authors:  Sara El-Metwally; Taher Hamza; Magdi Zakaria; Mohamed Helmy
Journal:  PLoS Comput Biol       Date:  2013-12-12       Impact factor: 4.475

10.  Baiji genomes reveal low genetic variability and new insights into secondary aquatic adaptations.

Authors:  Xuming Zhou; Fengming Sun; Shixia Xu; Guangyi Fan; Kangli Zhu; Xin Liu; Yuan Chen; Chengcheng Shi; Yunxia Yang; Zhiyong Huang; Jing Chen; Haolong Hou; Xuejiang Guo; Wenbin Chen; Yuefeng Chen; Xiaohong Wang; Tian Lv; Dan Yang; Jiajian Zhou; Bangqing Huang; Zhengfei Wang; Wei Zhao; Ran Tian; Zhiqiang Xiong; Junxiao Xu; Xinming Liang; Bingyao Chen; Weiqing Liu; Junyi Wang; Shengkai Pan; Xiaodong Fang; Ming Li; Fuwen Wei; Xun Xu; Kaiya Zhou; Jun Wang; Guang Yang
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

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  17 in total

1.  Genetic structure and signatures of selection in grey reef sharks (Carcharhinus amblyrhynchos).

Authors:  P Momigliano; R Harcourt; W D Robbins; V Jaiteh; G N Mahardika; A Sembiring; A Stow
Journal:  Heredity (Edinb)       Date:  2017-04-19       Impact factor: 3.821

2.  Liver transcriptome resources of four commercially exploited teleost species.

Authors:  André M Machado; Antonio Muñoz-Merida; Elza Fonseca; Ana Veríssimo; Rui Pinto; Mónica Felício; Rute R da Fonseca; Elsa Froufe; L Filipe C Castro
Journal:  Sci Data       Date:  2020-07-07       Impact factor: 6.444

3.  Seascape genomics of common dolphins (Delphinus delphis) reveals adaptive diversity linked to regional and local oceanography.

Authors:  Andrea Barceló; Jonathan Sandoval-Castillo; Chris J Brauer; Kerstin Bilgmann; Guido J Parra; Luciano B Beheregaray; Luciana M Möller
Journal:  BMC Ecol Evol       Date:  2022-07-12

4.  Restricted dispersal in a sea of gene flow.

Authors:  L Benestan; K Fietz; N Loiseau; P E Guerin; E Trofimenko; S Rühs; C Schmidt; W Rath; A Biastoch; A Pérez-Ruzafa; P Baixauli; A Forcada; E Arcas; P Lenfant; S Mallol; R Goñi; L Velez; M Höppner; S Kininmonth; D Mouillot; O Puebla; S Manel
Journal:  Proc Biol Sci       Date:  2021-05-19       Impact factor: 5.530

5.  Whole-genome assembly of the coral reef Pearlscale Pygmy Angelfish (Centropyge vrolikii).

Authors:  Iria Fernandez-Silva; James B Henderson; Luiz A Rocha; W Brian Simison
Journal:  Sci Rep       Date:  2018-01-24       Impact factor: 4.379

6.  Persistence of marine fish environmental DNA and the influence of sunlight.

Authors:  Elizabeth A Andruszkiewicz; Lauren M Sassoubre; Alexandria B Boehm
Journal:  PLoS One       Date:  2017-09-15       Impact factor: 3.240

7.  The Effects of Increasing the Number of Taxa on Inferences of Molecular Convergence.

Authors:  Gregg W C Thomas; Matthew W Hahn; Yoonsoo Hahn
Journal:  Genome Biol Evol       Date:  2017-01-01       Impact factor: 3.416

8.  Green, yellow or black? Genetic differentiation and adaptation signatures in a highly migratory marine turtle.

Authors:  Rocío Álvarez-Varas; Noemi Rojas-Hernández; Maike Heidemeyer; Cynthia Riginos; Hugo A Benítez; Raúl Araya-Donoso; Eduardo Reséndiz; Mónica Lara-Uc; Daniel A Godoy; Juan Pablo Muñoz-Pérez; Daniela E Alarcón-Ruales; Joanna Alfaro-Shigueto; Clara Ortiz-Alvarez; Jeffrey C Mangel; Juliana A Vianna; David Véliz
Journal:  Proc Biol Sci       Date:  2021-07-07       Impact factor: 5.530

9.  A climate-associated multispecies cryptic cline in the northwest Atlantic.

Authors:  Ryan R E Stanley; Claudio DiBacco; Ben Lowen; Robert G Beiko; Nick W Jeffery; Mallory Van Wyngaarden; Paul Bentzen; David Brickman; Laura Benestan; Louis Bernatchez; Catherine Johnson; Paul V R Snelgrove; Zeliang Wang; Brendan F Wringe; Ian R Bradbury
Journal:  Sci Adv       Date:  2018-03-28       Impact factor: 14.136

10.  Combining six genome scan methods to detect candidate genes to salinity in the Mediterranean striped red mullet (Mullus surmuletus).

Authors:  Alicia Dalongeville; Laura Benestan; David Mouillot; Stephane Lobreaux; Stéphanie Manel
Journal:  BMC Genomics       Date:  2018-03-27       Impact factor: 3.969

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