How genomics can help biodiversity conservation

Kathrin Theissinger; Carlos Fernandes; Giulio Formenti; Iliana Bista; Paul R. Berg; Christoph Bleidorn; Aureliano Bombarely; Angelica Crottini; Guido R. Gallo; Jose A. Godoy; Sissel Jentoft; Joanna Malukiewicz; Alice Mouton; Rebekah A. Oomen; Sadye Paez; Per J. Palsboll; Christophe Pampoulie; Maria J. Ruiz-Lopez; Simona Secomandi; Hannes Svardal; Constantina Theofanopoulou; Jan de Vries; Ann-Marie Waldvogel; Guojie Zhang; Erich D. Jarvis; Miklos Balint; Claudio Ciofi; Robert M. Waterhouse; Camila J. Mazzoni; Jacob Hoglund; et al.

doi:10.1016/j.tig.2023.01.005

How genomics can help biodiversity conservation

Kathrin Theissinger
, Carlos Fernandes
, Giulio Formenti
, Iliana Bista
, Paul R. Berg
, Christoph Bleidorn
, Aureliano Bombarely
, Angelica Crottini
, Guido R. Gallo
, Jose A. Godoy
, Sissel Jentoft
, Joanna Malukiewicz
, Alice Mouton
, Rebekah A. Oomen
, Sadye Paez
, Per J. Palsboll
, Christophe Pampoulie
, Maria J. Ruiz-Lopez
, Simona Secomandi
, Hannes Svardal

Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Erich D. Jarvis, Miklos Balint, Claudio Ciofi, Robert M. Waterhouse, Camila J. Mazzoni, Jacob Hoglund, et al.

Department of Aquatic Resources

Publication: Contribution to journal › Review article › peer-review

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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
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
Publication status	Published - 2023

Keywords

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

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10.1016/j.tig.2023.01.005

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Theissinger, K., Fernandes, C., Formenti, G., Bista, I., Berg, P. R., Bleidorn, C., Bombarely, A., Crottini, A., Gallo, G. R., Godoy, J. A., Jentoft, S., Malukiewicz, J., Mouton, A., Oomen, R. A., Paez, S., Palsboll, P. J., Pampoulie, C., Ruiz-Lopez, M. J., Secomandi, S., ... et al. (2023). How genomics can help biodiversity conservation. Trends in Genetics, 39(7), 545-559. https://doi.org/10.1016/j.tig.2023.01.005

@article{82bcccf2df4d41069a9de132671c6d7c,

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

author = "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, \{Jose A.\} and Sissel Jentoft and Joanna Malukiewicz and Alice Mouton and Oomen, \{Rebekah A.\} and Sadye Paez and Palsboll, \{Per J.\} and Christophe Pampoulie and Ruiz-Lopez, \{Maria J.\} and Simona Secomandi and Hannes Svardal and Constantina Theofanopoulou and \{de Vries\}, Jan and Ann-Marie Waldvogel and Guojie Zhang and Jarvis, \{Erich D.\} and Miklos Balint and Claudio Ciofi and Waterhouse, \{Robert M.\} and Mazzoni, \{Camila J.\} and Jacob Hoglund and Anti Vasem{\"a}gi and \{et al.\}",

year = "2023",

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

language = "English",

volume = "39",

pages = "545--559",

journal = "Trends in Genetics",

issn = "0168-9525",

publisher = "Elsevier Ltd",

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Theissinger, K, Fernandes, C, Formenti, G, Bista, I, Berg, PR, Bleidorn, C, Bombarely, A, Crottini, A, Gallo, GR, Godoy, JA, Jentoft, S, Malukiewicz, J, Mouton, A, Oomen, RA, Paez, S, Palsboll, PJ, Pampoulie, C, Ruiz-Lopez, MJ, Secomandi, S, Svardal, H, Theofanopoulou, C, de Vries, J, Waldvogel, A-M, Zhang, G, Jarvis, ED, Balint, M, Ciofi, C, Waterhouse, RM, Mazzoni, CJ, Hoglund, J & et al. 2023, 'How genomics can help biodiversity conservation', Trends in Genetics, vol. 39, no. 7, pp. 545-559. https://doi.org/10.1016/j.tig.2023.01.005

TY - JOUR

T1 - How genomics can help biodiversity conservation

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, Jose A.

AU - Jentoft, Sissel

AU - Malukiewicz, Joanna

AU - Mouton, Alice

AU - Oomen, Rebekah A.

AU - Paez, Sadye

AU - Palsboll, Per J.

AU - Pampoulie, Christophe

AU - Ruiz-Lopez, Maria 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 - Balint, Miklos

AU - Ciofi, Claudio

AU - Waterhouse, Robert M.

AU - Mazzoni, Camila J.

AU - Hoglund, Jacob

AU - Vasemägi, Anti

AU - et al.

PY - 2023

Y1 - 2023

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 - biodiversity genomics

KW - genomic toolbox

KW - reference genomes

KW - conservation applications

KW - European Reference Genome Atlas (ERGA)

KW - Anthropocene

KW - biodiversity genomics

KW - genomic toolbox

KW - reference genomes

KW - conservation applications

KW - European Reference Genome Atlas (ERGA)

UR - https://res.slu.se/id/publ/123797

U2 - 10.1016/j.tig.2023.01.005

DO - 10.1016/j.tig.2023.01.005

M3 - Review article

C2 - 36801111

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

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