How genomics can help biodiversity conservation

Towards complete and error-free genome assemblies of all vertebrate species

Rhie, A., McCarthy, S. A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., et al. (2021) · Nature · doi:10.1038/s41586-021-03451-0 · Cited by 3,097 · see citing works

A survey of best practices for RNA-seq data analysis

Conesa, A., Madrigal, P., Tarazona, S., Gomez-Cabrero, D., Cervera, A., McPherson, A., Szcześniak, M. W., Gaffney, D. J., Elo, L. L., Zhang, X., et al. (2016) · Genome Biology · doi:10.1186/s13059-016-0881-8 · Cited by 2,794 · see citing works

Environmental DNA metabarcoding: Transforming how we survey animal and plant communities

Deiner, K., Bik, H. M., Mächler, E., Seymour, M., Lacoursière‐Roussel, A., Altermatt, F., Creer, S., Bista, I., Lodge, D. M., de Vere, N., et al. (2017) · Molecular Ecology · doi:10.1111/mec.14350 · Cited by 1,964 · see citing works

Harnessing the power of RADseq for ecological and evolutionary genomics

Andrews, K. R., Good, J. M., Miller, M. R., Luikart, G., & Hohenlohe, P. A. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2015.28 · Cited by 1,502 · see citing works

CRISPR-Cas guides the future of genetic engineering

Knott, G. J., & Doudna, J. A. (2018) · Science · doi:10.1126/science.aat5011 · Cited by 1,410 · see citing works

Stacks 2: Analytical methods for paired‐end sequencing improve RADseq‐based population genomics

Rochette, N. C., Rivera‐Colón, A. G., & Catchen, J. (2019) · Molecular Ecology · doi:10.1111/mec.15253 · Cited by 1,265 · see citing works

Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA

Ruppert, K. M., Kline, R. J., & Rahman, M. S. (2019) · Global Ecology and Conservation · doi:10.1016/j.gecco.2019.e00547 · Cited by 1,260 · see citing works

A CRISPR-Cas9 gene drive system targeting female reproduction in the malaria mosquito vector Anopheles gambiae

Hammond, A., Galizi, R., Kyrou, K., Simoni, A., Siniscalchi, C., Katsanos, D., Gribble, M., Baker, D. A., Marois, É., Russell, S. R. H., et al. (2015) · Nature Biotechnology · doi:10.1038/nbt.3439 · Cited by 1,142 · see citing works

Vertebrates on the brink as indicators of biological annihilation and the sixth mass extinction

Ceballos, G., Ehrlich, P. R., & Raven, P. H. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1922686117 · Cited by 926 · cited 1× · see citing works

Finding the genomic basis of local adaptation: pitfalls, practical solutions, and future directions

Hoban, S., Kelley, J. L., Lotterhos, K. E., Antolin, M. F., Bradburd, G., Lowry, D. B., Poss, M. L., Reed, L. K., Storfer, A., & Whitlock, M. C. (2016) · The American Naturalist · doi:10.1086/688018 · Cited by 876 · cited 1× · see citing works

The Sixth Mass Extinction: fact, fiction or speculation?

Cowie, R. H., Bouchet, P., & Fontaine, B. (2022) · Biological Reviews · doi:10.1111/brv.12816 · Cited by 874 · cited 1× · see citing works

The genome sequence of Atlantic cod reveals a unique immune system

Star, B., Nederbragt, A. J., Jentoft, S., Grimholt, U., Malmstrøm, M., Gregers, T. F., Rounge, T. B., Paulsen, J., Solbakken, M. H., Sharma, A., et al. (2011) · Nature · doi:10.1038/nature10342 · Cited by 803 · see citing works

Eight high-quality genomes reveal pan-genome architecture and ecotype differentiation of Brassica napus

Song, J., Guan, Z., Hu, J., Guo, C., Yang, Z., Wang, S., Liu, D., Wang, B., Lu, S., Zhou, R., et al. (2020) · Nature Plants · doi:10.1038/s41477-019-0577-7 · Cited by 795 · see citing works

Sequencing pools of individuals — mining genome-wide polymorphism data without big funding

Schlötterer, C., Tobler, R., Kofler, R., & Nolte, V. (2014) · Nature Reviews Genetics · doi:10.1038/nrg3803 · Cited by 770 · see citing works

Population genomics for wildlife conservation and management

Hohenlohe, P. A., Funk, W. C., & Rajora, O. P. (2021) · Molecular Ecology · doi:10.1111/mec.15720 · Cited by 702 · see citing works

Understanding Inbreeding Depression, Purging, and Genetic Rescue

Hedrick, P. W., & García‐Dorado, A. (2016) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2016.09.005 · Cited by 671 · see citing works

Comparing methods for detecting multilocus adaptation with multivariate genotype–environment associations

Forester, B. R., Lasky, J. R., Wagner, H. H., & Urban, D. L. (2018) · Molecular Ecology · doi:10.1111/mec.14584 · Cited by 669 · see citing works

Genetic restoration of the Florida panther

Johnson, W. E., Onorato, D. P., Roelke, M. E., Land, E. D., Cunningham, M., Belden, R. C., McBride, R., Jansen, D., Lotz, M., Shindle, D., et al. (2010) · Science · doi:10.1126/science.1192891 · Cited by 659 · see citing works

Applications of next-generation sequencing to phylogeography and phylogenetics

McCormack, J. E., Hird, S. M., Zellmer, A. J., Carstens, B. C., & Brumfield, R. T. (2011) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2011.12.007 · Cited by 642 · see citing works

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

Rodriguez‐R, L. M., Gunturu, S., Harvey, W. T., Rossello-Mora, R. A., Tiedje, J. M., Cole, J. R., & Konstantinidis, K. T. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky467 · Cited by 585 · see citing works

Genomics and the challenging translation into conservation practice

Shafer, A. B. A., Wolf, J. B. W., Alves, P. C., Bergström, L., Bruford, M. W., Brännström, I. O., Colling, G., Dalén, L., Meester, L. D., Ekblom, R., et al. (2014) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2014.11.009 · Cited by 575 · see citing works

The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization

McCormick, R. F., Truong, S. K., Sreedasyam, A., Jenkins, J. W., Shu, S., Sims, D., Kennedy, M., Amirebrahimi, M., Weers, B. D., McKinley, B. A., et al. (2017) · The Plant Journal · doi:10.1111/tpj.13781 · Cited by 574 · see citing works

A Combinatorial View on Speciation and Adaptive Radiation

Marques, D. A., Meier, J. I., & D, O. S. C. (2019) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2019.02.008 · Cited by 562 · see citing works

Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow

Malinsky, M., Svardal, H., Tyers, A. M., Miska, E. A., Genner, M. J., Turner, G. F., & Durbin, R. M. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0717-x · Cited by 557 · see citing works

DNA barcodes for ecology, evolution, and conservation

Kress, W. J., García‐Robledo, C., Uriarte, M., & Erickson, D. L. (2014) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2014.10.008 · Cited by 541 · see citing works

Considering adaptive genetic variation in climate change vulnerability assessment reduces species range loss projections

Razgour, O., Forester, B. R., Taggart, J. B., Bekaert, M., Javier Juste, B., Ibáñez, C., Puechmaille, S. J., Novella‐Fernandez, R., Alberdi, A., & Manel, S. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1820663116 · Cited by 511 · see citing works

RAD Capture (Rapture): Flexible and Efficient Sequence-Based Genotyping

Ali, O. A., O’Rourke, S. M., Amish, S. J., Meek, M. H., Luikart, G., Jeffres, C. A., & Miller, M. R. (2015) · Genetics · doi:10.1534/genetics.115.183665 · Cited by 477 · see citing works

Whole‐genome sequencing approaches for conservation biology: Advantages, limitations and practical recommendations

Fuentes‐Pardo, A. P., & Ruzzante, D. E. (2017) · Molecular Ecology · doi:10.1111/mec.14264 · Cited by 396 · see citing works

Genomics advances the study of inbreeding depression in the wild

Kardos, M. D., Taylor, H. R., Ellegren, H., Luikart, G., & Allendorf, F. W. (2016) · Evolutionary Applications · doi:10.1111/eva.12414 · Cited by 390 · see citing works

A comparative genomics multitool for scientific discovery and conservation

Zoonomia Consortium, Genereux, D. P., Serres, A., Armstrong, J., Johnson, J., Marinescu, V. D., Murén, E., Juan, D., Bejerano, G., Casewell, N. R., et al. (2020) · Nature · doi:10.1038/s41586-020-2876-6 · Cited by 373 · see citing works

A roadmap for understanding the evolutionary significance of structural genomic variation

Mérot, C., Oomen, R. A., Tigano, A., & Wellenreuther, M. (2020) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2020.03.002 · Cited by 357 · see citing works

Genomic Prediction of (Mal)Adaptation Across Current and Future Climatic Landscapes

Capblancq, T., Fitzpatrick, M. C., Bay, R. A., Expósito‐Alonso, M., & Keller, S. R. (2020) · Annual Review of Ecology Evolution and Systematics · doi:10.1146/annurev-ecolsys-020720-042553 · Cited by 357 · see citing works

The era of reference genomes in conservation genomics

Formenti, G., Theissinger, K., Fernandes, C., Bista, I., Bombarely, A., Bleidorn, C., Ciofi, C., Crottini, A., Godoy, J. A., Höglund, J., et al. (2022) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2021.11.008 · Cited by 340 · see citing works

Evolutionary genomics can improve prediction of species’ responses to climate change

Waldvogel, A., Feldmeyer, B., Rolshausen, G., Expósito‐Alonso, M., Rellstab, C., Kofler, R., Möck, T., Schmid, K., Schmitt, I., Bataillon, T. M., et al. (2020) · Evolution Letters · doi:10.1002/evl3.154 · Cited by 336 · see citing works

Mining museums for historical DNA: advances and challenges in museomics

Raxworthy, C. J., & Smith, B. T. (2021) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2021.07.009 · Cited by 311 · see citing works

Genome skimming for next-generation biodiversity analysis

Dodsworth, S. (2015) · Trends in Plant Science · doi:10.1016/j.tplants.2015.06.012 · Cited by 307 · see citing works

Genetic load: genomic estimates and applications in non-model animals

Bertorelle, G., Raffini, F., Bosse, M., Bortoluzzi, C., Iannucci, A., Trucchi, E., Morales, H. E., & van Oosterhout, C. (2022) · Nature Reviews Genetics · doi:10.1038/s41576-022-00448-x · Cited by 306 · see citing works

The Exciting Potential and Remaining Uncertainties of Genetic Rescue

Bell, D. A., Robinson, Z. L., Funk, W. C., Fitzpatrick, S. W., Allendorf, F. W., Tallmon, D. A., & Whiteley, A. R. (2019) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2019.06.006 · Cited by 305 · see citing works

Guidelines for planning genomic assessment and monitoring of locally adaptive variation to inform species conservation

Flanagan, S. P., Forester, B. R., Latch, E. K., Aitken, S. N., & Hoban, S. (2017) · Evolutionary Applications · doi:10.1111/eva.12569 · Cited by 293 · see citing works

Purging of highly deleterious mutations through severe bottlenecks in Alpine ibex

Grossen, C., Guillaume, F., Keller, L. F., & Croll, D. (2020) · Nature Communications · doi:10.1038/s41467-020-14803-1 · Cited by 283 · see citing works

Quantifying Temporal Genomic Erosion in Endangered Species

Díez-del-Molino, D., Sánchez-Barreiro, F., Barnes, I., Gilbert, M. T. P., & Dalén, L. (2018) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2017.12.002 · Cited by 258 · see citing works

Ten years of transcriptomics in wild populations: what have we learned about their ecology and evolution?

Álvarez, M., Schrey, A. W., & Richards, C. L. (2014) · Molecular Ecology · doi:10.1111/mec.13055 · Cited by 248 · see citing works

The potential of genomics for restoring ecosystems and biodiversity

Breed, M. F., Harrison, P. A., Blyth, C., Byrne, M. M., Gaget, V., Gellie, N. J. C., Groom, S. V. C., Hodgson, R. J., Mills, J. G., Prowse, T. A. A., et al. (2019) · Nature Reviews Genetics · doi:10.1038/s41576-019-0152-0 · Cited by 247 · see citing works

Conservation demands safe gene drive

Esvelt, K. M., & Gemmell, N. J. (2017) · PLoS Biology · doi:10.1371/journal.pbio.2003850 · Cited by 244 · see citing works

The evolutionary basis of premature migration in Pacific salmon highlights the utility of genomics for informing conservation

Prince, D. J., O'Rourke, S. M., Thompson, T., Ali, O. A., Lyman, H. S., Saglam, I. K., Hotaling, T. J., Spidle, A., & Miller, M. R. (2016) · Science Advances · doi:10.1126/sciadv.1603198 · Cited by 221 · see citing works

Gene drives gaining speed

Bier, E. (2021) · Nature Reviews Genetics · doi:10.1038/s41576-021-00386-0 · Cited by 217 · see citing works

Genome sequence and genetic diversity of European ash trees

Sollars, E., Harper, A. L., Kelly, L. J., Sambles, C., Ramirez-Gonzalez, R. H., Swarbreck, D., Kaithakottil, G., Cooper, E. D., Uauy, C., Havlíčková, L., et al. (2016) · Nature · doi:10.1038/nature20786 · Cited by 214 · see citing works

Adaptation to Global Change: A Transposable Element–Epigenetics Perspective

Rey, O., Danchin, É., Mirouze, M., Loot, C., & Blanchet, S. (2016) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2016.03.013 · Cited by 211 · see citing works

Extreme genomic erosion after recurrent demographic bottlenecks in the highly endangered Iberian lynx

Abascal, F., Corvelo, A., Cruz, F., Villanueva‐Cañas, J. L., Vlasova, A. V., Marcet‐Houben, M., Martínez‐Cruz, B., Cheng, J. Y., Prieto, P., Quesada, V., et al. (2016) · Genome biology · doi:10.1186/s13059-016-1090-1 · Cited by 211 · see citing works

Is CRISPR-based gene drive a biocontrol silver bullet or global conservation threat?

Webber, B. L., Raghu, S., & Edwards, O. R. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1514258112 · Cited by 208 · see citing works

Can Environmental RNA Revolutionize Biodiversity Science?

Cristescu, M. E. (2019) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2019.05.003 · Cited by 208 · see citing works

Bridging the conservation genetics gap by identifying barriers to implementation for conservation practitioners

Taylor, H. R., Dussex, N., & van Heezik, Y. (2017) · Global Ecology and Conservation · doi:10.1016/j.gecco.2017.04.001 · Cited by 206 · see citing works

The Genomic Footprints of the Fall and Recovery of the Crested Ibis

Feng, S., Fang, Q., Barnett, R., Li, C., Han, S., Kuhlwilm, M., Zhou, L., Pan, H., Deng, Y., Chen, G., et al. (2019) · Current Biology · doi:10.1016/j.cub.2018.12.008 · Cited by 201 · see citing works

Whole genome re-sequencing of date palms yields insights into diversification of a fruit tree crop

Hazzouri, K. M., Flowers, J. M., Visser, H. J., Khierallah, H. S. M., Rosas, U., Pham, G. M., Meyer, R. S., Johansen, C. K., Fresquez, Z. A., Masmoudi, K., et al. (2015) · Nature Communications · doi:10.1038/ncomms9824 · Cited by 200 · see citing works

Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel

Gerdol, M., Moreira, R., Cruz, F., Gómez‐Garrido, J., Vlasova, A. V., Rosani, U., Venier, P., Naranjo-Ortíz, M. A., Murgarella, M., Greco, S., et al. (2020) · Genome biology · doi:10.1186/s13059-020-02180-3 · Cited by 198 · see citing works

Genetic and genomic monitoring with minimally invasive sampling methods

Carroll, E. L., Bruford, M. W., DeWoody, J. A., Leroy, G., Strand, A. E., Waits, L. P., & Wang, J. (2018) · Evolutionary Applications · doi:10.1111/eva.12600 · Cited by 196 · see citing works

Next‐generation metrics for monitoring genetic erosion within populations of conservation concern

Leroy, G., Carroll, E. L., Bruford, M. W., DeWoody, J. A., Strand, A. E., Waits, L. P., & Wang, J. (2017) · Evolutionary Applications · doi:10.1111/eva.12564 · Cited by 193 · see citing works

Historical Genomes Reveal the Genomic Consequences of Recent Population Decline in Eastern Gorillas

van der Valk, T., Díez-del-Molino, D., Marques-Bonet, T., Guschanski, K., & Dalén, L. (2019) · Current Biology · doi:10.1016/j.cub.2018.11.055 · Cited by 188 · see citing works

The importance of genomic variation for biodiversity, ecosystems and people

Stange, M., Barrett, R. D. H., & Hendry, A. P. (2020) · Nature Reviews Genetics · doi:10.1038/s41576-020-00288-7 · Cited by 186 · see citing works

Environmental DNA (eDNA) metabarcoding assays to detect invasive invertebrate species in the Great Lakes

Klymus, K. E., Marshall, N. T., & Stepien, C. A. (2017) · PLoS ONE · doi:10.1371/journal.pone.0177643 · Cited by 184 · see citing works

Three chromosomal rearrangements promote genomic divergence between migratory and stationary ecotypes of Atlantic cod

Berg, P. R., Star, B., Pampoulie, C., Sodeland, M., Barth, J. M. I., Knutsen, H., Jakobsen, K. S., & Jentoft, S. (2016) · Scientific Reports · doi:10.1038/srep23246 · Cited by 175 · see citing works

Is It Time for Synthetic Biodiversity Conservation?

Piaggio, A. J., Segelbacher, G., Seddon, P. J., Alphey, L., Bennett, E. L., Carlson, R. H., Friedman, R. M., Kanavy, D., Phelan, R. M., Redford, K. H., et al. (2016) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2016.10.016 · Cited by 166 · see citing works

Current CRISPR gene drive systems are likely to be highly invasive in wild populations

Noble, C., Adlam, B., Church, G. M., Esvelt, K. M., & Nowak, M. A. (2018) · eLife · doi:10.7554/elife.33423 · Cited by 165 · see citing works

Genetic diversity is considered important but interpreted narrowly in country reports to the Convention on Biological Diversity: Current actions and indicators are insufficient

Hoban, S., Campbell, C. D., da Silva, J. M., Ekblom, R., Funk, W. C., Garner, B. A., Godoy, J. A., Kershaw, F., MacDonald, A. J., Mergeay, J., et al. (2021) · Biological Conservation · doi:10.1016/j.biocon.2021.109233 · Cited by 160 · see citing works

The Value of Reference Genomes in the Conservation of Threatened Species

Brandies, P., Peel, E., Hogg, C. J., & Belov, K. (2019) · Genes · doi:10.3390/genes10110846 · Cited by 158 · see citing works

Hybridization Capture Using RAD Probes (hyRAD), a New Tool for Performing Genomic Analyses on Collection Specimens

Suchan, T., Pitteloud, C., Gerasimova, N. S., Kostikova, A., Schmid, S., Arrigo, N., Pajkovic, M., Ronikier, M., & Álvarez, N. (2016) · PLoS ONE · doi:10.1371/journal.pone.0151651 · Cited by 157 · see citing works

Microhaplotypes provide increased power from short‐read DNA sequences for relationship inference

Baetscher, D. S., Clemento, A. J., Ng, T. C., Anderson, E. C., & Garza, J. C. (2017) · Molecular Ecology Resources · doi:10.1111/1755-0998.12737 · Cited by 152 · see citing works

The comparative genomics and complex population history of Papio baboons

Rogers, J., Raveendran, M., Harris, R., Mailund, T., Leppälä, K., Athanasiadis, G., Schierup, M., Cheng, J., Munch, K., Walker, J. A., et al. (2019) · Science Advances · doi:10.1126/sciadv.aau6947 · Cited by 152 · see citing works

The Peril of Gene-Targeted Conservation

Kardos, M. D., & Shafer, A. B. A. (2018) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2018.08.011 · Cited by 149 · see citing works

Performance of amplicon and shotgun sequencing for accurate biomass estimation in invertebrate community samples

Bista, I., Carvalho, G. R., Tang, M., Walsh, K. A., Zhou, X. Y., Hajibabaei, M., Shokralla, S., Seymour, M., Bradley, D. T. C., Liu, S., et al. (2018) · Molecular Ecology Resources · doi:10.1111/1755-0998.12888 · Cited by 147 · see citing works

Reviving the Transcriptome Studies: An Insight Into the Emergence of Single-Molecule Transcriptome Sequencing

Wang, B., Kumar, V., Olson, A. J., & Ware, D. (2019) · Frontiers in Genetics · doi:10.3389/fgene.2019.00384 · Cited by 142 · see citing works

Puma genomes from North and South America provide insights into the genomic consequences of inbreeding

Saremi, N. F., Supple, M. A., Byrne, A., Cahill, J. A., Coutinho, L. L., Dalén, L., Figueiró, H. V., Johnson, W. E., Milne, H. J., O’Brien, S. J., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12741-1 · Cited by 141 · see citing works

Sponges as natural environmental DNA samplers

Mariani, S., Baillie, C., Colosimo, G., & Riesgo, A. (2019) · Current Biology · doi:10.1016/j.cub.2019.04.031 · Cited by 140 · see citing works

A genomic perspective on stoichiometric regulation of soil carbon cycling

Hartman, W. H., Ye, R., Horwáth, W. R., & Tringe, S. G. (2017) · The ISME Journal · doi:10.1038/ismej.2017.115 · Cited by 138 · see citing works

Supergene origin and maintenance in Atlantic cod

Matschiner, M., Barth, J. M. I., Tørresen, O. K., Star, B., Baalsrud, H. T., Brieuc, M. S. O., Pampoulie, C., Bradbury, I., Jakobsen, K. S., & Jentoft, S. (2022) · Nature Ecology & Evolution · doi:10.1038/s41559-022-01661-x · Cited by 138 · see citing works

A High-Quality De novo Genome Assembly from a Single Mosquito Using PacBio Sequencing

Kingan, S. B., Heaton, H., Cudini, J., Lambert, C. C., Baybayan, P. A., Galvin, B. D., Durbin, R. M., Korlach, J., & Lawniczak, M. (2019) · Genes · doi:10.3390/genes10010062 · Cited by 136 · see citing works

Genomic insights into the conservation status of the world’s last remaining Sumatran rhinoceros populations

von Seth, J., Dussex, N., Díez‐del‐Molino, D., van der Valk, T., Kutschera, V. E., Kierczak, M., Steiner, C., Liu, S., Gilbert, M. T. P., Sinding, M. S., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-22386-8 · Cited by 132 · see citing works

Whole-genome analysis of introgressive hybridization and characterization of the bovine legacy of Mongolian yaks

Međugorac, I., Graf, A., Grohs, C., Rothammer, S., Zagdsuren, Y., Александровна, Г. Е., Zinovieva, N. A., Barbieri, J., Seichter, D., Ruß, I., et al. (2017) · Nature Genetics · doi:10.1038/ng.3775 · Cited by 129 · see citing works

Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri

Kenny, N. J., Francis, W. R., Rivera-Vicéns, R. E., Juravel, K., de Mendoza, A., Díez-Vives, C., Lister, R., Bezares-Calderón, L. A., Grombacher, L., Roller, M., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-17397-w · Cited by 129 · see citing works

Trans-oceanic genomic divergence of Atlantic cod ecotypes is associated with large inversions

Berg, P. R., Star, B., Pampoulie, C., Bradbury, I., Bentzen, P., Hutchings, J. A., Jentoft, S., & Jakobsen, K. S. (2017) · Heredity · doi:10.1038/hdy.2017.54 · Cited by 128 · see citing works

Linking epigenetics and biological conservation: Towards a conservation epigenetics perspective

Rey, O., Eizaguirre, C., Angers, B., Baltazar‐Soares, M., Sagonas, Κ., Prunier, J. G., & Blanchet, S. (2019) · Functional Ecology · doi:10.1111/1365-2435.13429 · Cited by 127 · see citing works

The ash dieback invasion of Europe was founded by two genetically divergent individuals

McMullan, M., Rafiqi, M., Kaithakottil, G., Clavijo, B., Bilham, L. J., Orton, E., Percival‐Alwyn, L., Ward, B. J., Edwards, A., Saunders, D. G. O., et al. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0548-9 · Cited by 124 · see citing works

Using Haplotype Information for Conservation Genomics

Leitwein, M., Duranton, M., Rougemont, Q., Gagnaire, P., & Bernatchez, L. (2019) · Trends in Ecology & Evolution · doi:10.1016/j.tree.2019.10.012 · Cited by 124 · see citing works

Pathways to de‐extinction: how close can we get to resurrection of an extinct species?

Shapiro, B. (2016) · Functional Ecology · doi:10.1111/1365-2435.12705 · Cited by 123 · see citing works

A Reference Genome Sequence for Giant Sequoia

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Applying genomic data in wildlife monitoring: Development guidelines for genotyping degraded samples with reduced single nucleotide polymorphism panels

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Towards holistic insect monitoring: species discovery, description, identification and traits for all insects

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An epigenetic toolbox for conservation biologists

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Real‐time genomics for One Health

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Genomic insights into the conservation of wild and domestic animal diversity: A review

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Illuminating Entomological Dark Matter with DNA Barcodes in an Era of Insect Decline, Deep Learning, and Genomics

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Abundance estimation with DNA metabarcoding – recent advancements for terrestrial arthropods

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Dealing With the Complexity of Effective Population Size in Conservation Practice

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The Ruminant Telomere-to-Telomere (RT2T) Consortium

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Advances in environmental DNA monitoring: standardization, automation, and emerging technologies in aquatic ecosystems

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Genetic Diversity Landscape in African Population: A Review of Implications for Personalized and Precision Medicine

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Hybridization of Atlantic puffins in the Arctic coincides with 20th-century climate change

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Establishing African genomics and bioinformatics programs through annual regional workshops

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Genomics and Bioinformatics in One Health: Transdisciplinary Approaches for Health Promotion and Disease Prevention

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Protist genomics: key to understanding eukaryotic evolution

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A comparison of genomic diversity and demographic history of the North Atlantic and Southwest Atlantic southern right whales

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Finding genes and pathways that underlie coral adaptation

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Genomics and conservation: Guidance from training to analyses and applications

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Ethical Aspects of Human Genome Research in Sports—A Narrative Review

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Genomic insights into endangerment and conservation of the garlic-fruit tree (Malania oleifera), a plant species with extremely small populations

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Toward a Global Science of Conservation Genomics: Coldspots in Genomic Resources Highlight a Need for Equitable Collaborations and Capacity Building

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Historic Sampling of a Vanishing Beast: Population Structure and Diversity in the Black Rhinoceros

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The Amphibian Genomics Consortium: advancing genomic and genetic resources for amphibian research and conservation

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Comparative genomic analyses provide new insights into evolutionary history and conservation genomics of gorillas

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The influence of gene flow on population viability in an isolated urban caracal population

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The International Union for Conservation of Nature Red List does not account for intraspecific diversity

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Scientist engagement and the knowledge–action gap

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Global conservation genomics of blue whales calls into question subspecies taxonomy and refines knowledge of population structure

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Bringing genomics to the field: An integrative approach to seed sourcing for forest restoration

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Indigenous Data Sovereignty in Genomics and Human Genetics: Genomic Equity and Justice for Indigenous Peoples

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A user’s guide for understanding reptile and amphibian hydroregulation and climate change impacts

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Genome engineering in biodiversity conservation and restoration

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Reference genome bias in light of species-specific chromosomal reorganization and translocations

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AI-informed conservation genomics

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Structural genomic variation in the inbred Scandinavian wolf population contributes to the realized genetic load but is positively affected by immigration

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Evolution of 3D Chromatin Folding

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Isolation of Biomolecules Using MXenes

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IPOP: An Integrative Plant Multi-omics Platform for Cross-species Comparison and Evolutionary Study

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On the estimation of genome-average recombination rates

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The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomicsPreprint

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A European biobanking strategy for safeguarding macroalgal genetic material to ensure food security, biosecurity and conservation of biodiversity

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Pangenomes: new tools for ecological and evolutionary genomics

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Recent Advances in Genetics and Genomics of Snub-Nosed Monkeys (Rhinopithecus) and Their Implications for Phylogeny, Conservation, and Adaptation

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The promise and challenges of characterizing genome‐wide structural variants: A case study in a critically endangered parrot

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Contextualising samples: supporting reference genomes of European biodiversity through sample and associated metadata collection

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Spatial Transcriptomics of Developing Wheat Seed Reveals Concentric Gene Expression Zones and Subgenome Biased Expression of Key Genes

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The current status of the use of genetic modification and editing to improve biodiversity and ecological sustainability

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Experimental ecology and the balance between realism and feasibility in aquatic ecosystems

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Using the Constrained Disorder Principle to Navigate Uncertainties in Biology and Medicine: Refining Fuzzy Algorithms

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Genetic Stock Identification Reveals Mismatches Between Management Areas and Population Genetic Structure in a Migratory Pelagic Fish

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Advancing molecular macrobenthos biodiversity monitoring: a comparison between Oxford Nanopore and Illumina based metabarcoding and metagenomics

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First whole-genome sequence and assembly of the Ecuadorian brown-headed spider monkey ( Ateles fusciceps fusciceps ), a critically endangered species, using Oxford Nanopore Technologies

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South African indigenous chickens' genetic diversity, and the adoption of ecological niche modelling and landscape genomics as strategic conservation techniques

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Applying simple genomic workflows to optimise practical plant translocation outcomes

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Genomic exploration of the endangered oriental stork, Ciconia boyciana , sheds light on migration adaptation and future conservation

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De novo genome assembly, inversion detection, and worldwide adaptation on the invasive species Styela plicata

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Pangenomics combined with artificial intelligence and precision breeding can accelerate crop improvement

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Designing Microbe–Semiconductor Interfaces for Semibiological Photosynthesis

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Epigenetic Diversity and the Evolutionary Potential of Wild Populations

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Chromosome-level genome assembly and methylome profile yield insights for the conservation of endangered loggerhead sea turtles

Yen, E. C., Gilbert, J. D., Balard, A., Taxonera, A., Fairweather, K., Ford, H. L., Thorburn, D. J., Rossiter, S. J., Martín-Durán, J. M., & Eizaguirre, C. (2025) · GigaScience · doi:10.1093/gigascience/giaf054 · Cited by 9 · see citing works

A PacBio Hi-Fi Genome Assembly of the Painter’s Mussel Unio pictorum (Linnaeus, 1758)

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Taxonomic Identification and Molecular DNA Barcoding of Collected Wild-Growing Orchids Used Traditionally for Salep Production

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Current progress and future prospects for understanding genetic diversity of seed plants in China

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Biodiversity and Ecosystem Services in Rivers

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Exploring the journey of plant breeding from ancient traditional practices to modern advancements

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Ex vivo and in vitro methods as a platform for studying anthropogenic effects on marine mammals: four challenges and how to meet them

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Genomic Insights Into the Origin, Decline and Recovery of the Once Critically Endangered Iberian Lynx

Godoy, J. A., Bazzicalupo, E., Casas‐Marce, M., Cruz, F., Fernández, J., Hasselgren, M., Kleinman‐Ruiz, D., Lorenzo‐Fernández, L., Lucena-Pérez, M., Marmesat, E., et al. (2025) · Molecular Ecology · doi:10.1111/mec.17719 · Cited by 9 · see citing works

Plant Genetic Resources Conservation and Utilization in Nigeria

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Diatom studies three decades into the molecular age: a bibliometric analysis reveals genetic underexploration of diatoms compared to other taxa

Kollár, J., Kopalová, K., & Kohler, T. J. (2025) · Fottea · doi:10.5507/fot.2024.009 · Cited by 9 · see citing works

Pathways to Recovery: Genomics and Resistance Assays for Tree Species Devastated by the Myrtle Rust Pathogen

Chen, S. H., Yap, J. S., Viler, V., Stehn, C., Sandhu, K. S., Percival, J., Pegg, G. S., Menzies, T., Jones, A., Guo, K., et al. (2025) · Molecular Ecology · doi:10.1111/mec.70030 · Cited by 9 · see citing works

Unlocking the African bioeconomy and strengthening biodiversity conservation through genomics and bioinformatics

Hayah, I., Ezebuiro, V., Kagame, S. P., Kuja, J. O., Waruhiu, C. N., Nesengani, L., Mdyogolo, S., Molotsi, A., Abechi, P., Abushady, A. M., et al. (2025) · npj Biodiversity · doi:10.1038/s44185-025-00102-9 · Cited by 9 · see citing works

Haplotype-resolved reference genomes of the sea turtle clade unveil ultra-syntenic genomes with hotspots of divergence

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The endless forms are the most differentiated—how taxonomic pseudo-optimization masked natural diversity and evolution: the nudibranch case

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Genetic Disruptions Induced by Marine Invasive Species: Implications for Biodiversity, Evolutionary Trajectories, and Ecosystem Resilience

Hridoy, M. A. A. M., Bordin, C., Baki, A. O., David, G. S., Sa’adi, Z., Nath, A. R., Mim, M. M. M., Jahan, T., Chanda, S., Meem, T. I., et al. (2025) · Marine Ecology · doi:10.1111/maec.70074 · Cited by 9 · see citing works

Evaluating restriction enzyme selection for reduced representation sequencing in conservation genomics

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Monitoring genome-wide diversity over contemporary time with new indicators applied to Arctic charr populations

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The jacktree genome and population genomics provides insights for the mechanisms of the germination obstacle and the conservation of endangered ornamental plants

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Genomic infrastructure for cetacean research and conservation: reference genomes for eight families spanning the cetacean tree of life

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Conservation status of the idle crayfish Austropotamobius bihariensis Pârvulescu, 2019

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The genome of the rayed Mediterranean limpet Patella caerulea (Linnaeus, 1758)

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Application of a biological trait‐based framework for plant species conservation assessments in ecological restoration

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