How genomics can help biodiversity conservation

The European Reference Genome Atlas Consortium

doi:10.1016/j.tig.2023.01.005

How genomics can help biodiversity conservation

The European Reference Genome Atlas Consortium

Future of Innovation in Society, School for the (SFIS)

Research output: Contribution to journal › Review article › peer-review

46 Scopus citations

Abstract

The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics.

Original language	English (US)
Pages (from-to)	545-559
Number of pages	15
Journal	Trends in Genetics
Volume	39
Issue number	7
DOIs	https://doi.org/10.1016/j.tig.2023.01.005
State	Published - Jul 2023

Keywords

Anthropocene
European Reference Genome Atlas (ERGA)
biodiversity genomics
conservation applications
genomic toolbox
reference genomes

ASJC Scopus subject areas

Genetics

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10.1016/j.tig.2023.01.005

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title = "How genomics can help biodiversity conservation",

abstract = "The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics.",

keywords = "Anthropocene, European Reference Genome Atlas (ERGA), biodiversity genomics, conservation applications, genomic toolbox, reference genomes",

author = "{The European Reference Genome Atlas Consortium} and Kathrin Theissinger and Carlos Fernandes and Giulio Formenti and Iliana Bista and Berg, {Paul R.} and Christoph Bleidorn and Aureliano Bombarely and Angelica Crottini and Gallo, {Guido R.} and Godoy, {Jos{\'e} A.} and Sissel Jentoft and Joanna Malukiewicz and Alice Mouton and Oomen, {Rebekah A.} and Sadye Paez and Palsb{\o}ll, {Per J.} and Christophe Pampoulie and Ruiz-L{\'o}pez, {Mar{\'i}a J.} and Simona Secomandi and Hannes Svardal and Constantina Theofanopoulou and {de Vries}, Jan and Waldvogel, {Ann Marie} and Guojie Zhang and Jarvis, {Erich D.} and Mikl{\'o}s B{\'a}lint and Claudio Ciofi and Waterhouse, {Robert M.} and Mazzoni, {Camila J.} and Jacob H{\"o}glund and Aghayan, {Sargis A.} and Alioto, {Tyler S.} and Isabel Almudi and Nadir Alvarez and Alves, {Paulo C.} and {Amorim do Rosario}, {Isabel R.} and Agostinho Antunes and Paula Arribas and Petr Baldrian and Giorgio Bertorelle and Astrid B{\"o}hne and Andrea Bonisoli-Alquati and Bo{\v s}tjan{\v c}i{\'c}, {Ljudevit L.} and Bastien Boussau and Breton, {Catherine M.} and Elena Buzan and Campos, {Paula F.} and Carlos Carreras and Castro, {L. FIlipe C.} and Robert Cook-Deegan",

note = "Publisher Copyright: {\textcopyright} 2023 The Author(s)",

year = "2023",

month = jul,

doi = "10.1016/j.tig.2023.01.005",

language = "English (US)",

volume = "39",

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AU - The European Reference Genome Atlas Consortium

AU - Theissinger, Kathrin

AU - Fernandes, Carlos

AU - Formenti, Giulio

AU - Bista, Iliana

AU - Berg, Paul R.

AU - Bleidorn, Christoph

AU - Bombarely, Aureliano

AU - Crottini, Angelica

AU - Gallo, Guido R.

AU - Godoy, José A.

AU - Jentoft, Sissel

AU - Malukiewicz, Joanna

AU - Mouton, Alice

AU - Oomen, Rebekah A.

AU - Paez, Sadye

AU - Palsbøll, Per J.

AU - Pampoulie, Christophe

AU - Ruiz-López, María J.

AU - Secomandi, Simona

AU - Svardal, Hannes

AU - Theofanopoulou, Constantina

AU - de Vries, Jan

AU - Waldvogel, Ann Marie

AU - Zhang, Guojie

AU - Jarvis, Erich D.

AU - Bálint, Miklós

AU - Ciofi, Claudio

AU - Waterhouse, Robert M.

AU - Mazzoni, Camila J.

AU - Höglund, Jacob

AU - Aghayan, Sargis A.

AU - Alioto, Tyler S.

AU - Almudi, Isabel

AU - Alvarez, Nadir

AU - Alves, Paulo C.

AU - Amorim do Rosario, Isabel R.

AU - Antunes, Agostinho

AU - Arribas, Paula

AU - Baldrian, Petr

AU - Bertorelle, Giorgio

AU - Böhne, Astrid

AU - Bonisoli-Alquati, Andrea

AU - Boštjančić, Ljudevit L.

AU - Boussau, Bastien

AU - Breton, Catherine M.

AU - Buzan, Elena

AU - Campos, Paula F.

AU - Carreras, Carlos

AU - Castro, L. FIlipe C.

AU - Cook-Deegan, Robert

PY - 2023/7

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N2 - The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics.

AB - The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics.

KW - Anthropocene

KW - European Reference Genome Atlas (ERGA)

KW - biodiversity genomics

KW - conservation applications

KW - genomic toolbox

KW - reference genomes

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U2 - 10.1016/j.tig.2023.01.005

DO - 10.1016/j.tig.2023.01.005

M3 - Review article

C2 - 36801111

AN - SCOPUS:85148377777

SN - 0168-9525

VL - 39

SP - 545

EP - 559

JO - Trends in Genetics

JF - Trends in Genetics

IS - 7

ER -

How genomics can help biodiversity conservation

Abstract

Keywords

ASJC Scopus subject areas

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