M. Campbell | Gvl Website

Dr. Matthew 'Mac' Campbell - Research Associate

Fishes and Marine Invertebrates Collection, University of Alaska Museum of the North

maccampbell@ucdavis.edu I Google Scholar I Orc

B.A., Biology, Willamette University 2006

M.Sc., Biology, University of Alaska Fairbanks, 2011

Ph.D., Biological Sciences, University of Fairbanks, 2014

Google Scholar I OrcID

2024

[48] Campbell MA, Hammer MP, Adams MB and Unmack PJ. 2024. Evolutionary relationships and fine-scale geographic

structuring in the temperate percichthyid genus Gadopsis (blackfishes) to support fisheries and conservation management. Molecular Phylogenetics and Evolution. 199, 108159. https://doi.org/10.1016/j.ympev.2024.108159

[47] Habibi E, Miller MR, Schreier AD, Campbell MA, Hung T-C, Gille DA, Baerwald MR and Finger AJ. Single generation

epigenetic change in captivity and reinforcement in subsequent generations in a delta smelt (Hypomesus transpacificus) conservation hatchery. Molecular Ecology. 00. e17449. https://doi.org/10.1111/mec.17449

[46] Campbell MA and Hale MC. Genomic structural variation in Barramundi Perch Lates calcarifer and potential roles in

speciation and adaptation. G3. jkae141. https://doi.org/10.1093/g3journal/jkae141

[45] Hale MC, Pearse DE, and Campbell MA. 2024. Characterization and distribution of a 14-Mb chromosomal inversion in

native populations of rainbow trout (Oncorhynchus mykiss). G3. jkae100. https://doi.org/10.1093/g3journal/jkae100

[44] Blanco-Melo D, Campbell MA*, Zhu H, Dennis TPW, Modha S, Lytras S, Hughes J, and Gifford RJ. 2024. A novel approach

to exploring the dark genome and its application to mapping of the vertebrate ‘fossil record’. Genome Biology. 25, 120. https://doi.org/10.1186/s13059-024-03258-y *co-first author.

[43] Rogers et al. 2024. Genomic and common garden data reveal significant genetic differentiation in an endangered plant

plant species, San Fernando Valley spineflower Chorizanthe parryi var. fernandina. Conservation Genetics. https://doi.org/10.1007/s10592-024-01610-0

[42] Campbell MA, Brown RJ, Fraley KM, Politov DV, López JA and Robards M. 2024. Biogeography of Beringian fishes after

the molecular revolution and into the post-genomics era. Reviews in Fish Biology and Fisheries. 34, 161-199. https://doi.org/10.1007/s11160-023-09827-x

2023

[41] Auringer G, Campbell MA, Goertler PAL and Finger AJ. 2023. Lamprey in California (Lampetra and Entosphenus spp.):

Mitochondrial phylogenetic analysis reveals previously unrecognized lamprey diversity. North American Journal of Fisheries Management. 43, 1511-1. https://doi.org/10.1002/nafm.10959
Press Release: https://www.ucdavis.edu/climate/news/new-species-lamprey-fish-documented-california
News Article: https://www.sfchronicle.com/bayarea/article/new-species-lamprey-fish-18615845.php
Radio Interview: https://www.ijpr.org/show/the-jefferson-exchange/2024-02-05/tue-9-am-scientists-find-two-previously-unknown-species-of-lamprey-in-california

[40] Campbell MA, Hale MC, Jalbert CS, Dunker K, Sepulveda AJ, López JA, Falke JA and Westley PAH. 2023. Genomics

reveals the origins and current structure of a genetically depauperate freshwater species in its introduced Alaskan range. Evolutionary Applications. 16, 1119-1134. https://doi.org/10.1111/eva.13556

Campbell et al. 2023 - EvolApp.pdf

[39] Campbell MA, Badger ME, Starotska AB, Hawks T and Finger AJ. 2023. Molecular phylogenetic and population

genetic relationships of a putative species of sucker (Catostomus sp.) from Surprise Valley in the Great Basin, USA. Transactions of the American Fisheries Society. 152, 273– 286. https://doi.org/10.1002/tafs.10407Featured Paper

Campbell et al. (2023) TAFS.pdf

[38] Baerwald MR, Funk EC, Goodbla AM, Campbell MA, Thompson T, Meek M and Schreier AD. 2023. Rapid CRISPR-

Cas13a genetic identification enables new opportunities for listed Chinook salmon management. Molecular Ecology Resources. 00, 1– 13. https://doi.org/10.1111/1755-0998.13777

Article: https://www.reuters.com/business/environment/scientists-saving-endangered-salmon-get-help-gene-slicing-tool-2021-06-07/

Baerwald et al. (2023).pdf

[37] Campbell MA, Habibi E, Auringer G, Stephens M, Conway K, Rodzen, J, Conway KW and Finger AJ. Molecular

systematics of Redband Trout from Genome-Wide DNA Sequencing substantiates the description of a new taxon (Salmonidae: Oncorhynchus mykiss calisulat) from the McCloud River. Zootaxa. 5254 (1):001-029. https://doi.org/10.11646/zootaxa.5254.1.1

Campbell et al. (2023) Zootaxa.pdf

Press Release: https://www.ucdavis.edu/climate/news/rainbow-trout-subspecies-newly-named

Radio Interview: https://www.ijpr.org/show/the-jefferson-exchange/2023-04-14/mon-9-am-this-fish-is-not-like-the-others-mccloud-river-redband-trout

Radio Interview: https://omny.fm/shows/kcbsam-on-demand/local-mccloud-river-tribe-names-a-newly-evolved-sp?in_playlist=podcast&cloudflare-language=

2022

[36] Campbell MA, Loncar SA, Kotin R and Gifford RJ. Comparative analysis reveals the long-term co-evolutionary

history of parvoviruses and vertebrates. PLoS Biology. 20(11): e3001867. https://doi.org/10.1371/journal.pbio.3001867

Campbell, Loncar et al. (2022).pdf

Press Release: https://www.gla.ac.uk/news/headline_897857_en.html

[35] Su Y, Moyle PB, Campbell MA, Finger AJ, O’Rourke S, Baumsteiger J, and Miller MR. 2022. Population genomic

analysis of the speckled dace species complex (Rhinichthys osculus) identifies three species-level lineages. Transactions of the American Fisheries Society. 151:695–710 https://doi.org/10.1002/tafs.10388 Featured Paper

Su et al. (2022).pdf

[34] Ghezelayagh et al. 2022. Prolonged morphological expansion of the hyperdiverse spiny-rayed fishes following the

end-Cretaceous. Nature Ecology and Evolution. 6: 1211-1220 https://doi.org/10.1038/s41559-022-01801-3.

Ghezelayagh et al. 2022.pdf

[33] Moyle PB and Campbell MA. 2022. Cryptic Species of Freshwater Sculpin (Cottidae: Cottus) in California. Zootaxa.

5154: 501–527. https://doi.org/10.11646/zootaxa.5154.5.1

Moyle and Campbell 2022 Zootaxa.pdf

Article: https://californiawaterblog.com/2023/01/29/dna-unveils-new-freshwater-fish-species-in-california/

Featured in the SHOAL New Species Report: https://shoalconservation.org/new-species-2022-report-released/

[32] Campbell MA, Joslin SEK, Goodbla AM, Willmes M, Hobbs JA, Lewis LS and Finger AJ. 2022. Polygenic

discrimination of migratory phenotypes in an estuarine forage fish. G3. jkac133.

https://doi.org/10.1093/g3journal/jkac133

Campbell et al. 2022 G3.pdf

[31] Finger AJ, Benjamin A, Crookshanks C., Campbell MA and Saglam IK. 2022. Broad- and fine-scale structure across

the distribution of the Relict Dace (Relictus solitarius) in the Great Basin Desert, USA. Conservation Science and Practice. e12672. https://doi.org/10.1111/csp2.12672

Finger et al. (2022).pdf

2021

[30] Campbell MA, Anderson EC, Garza JC, and Pearse DE. 2021. Polygenic basis and the role of genome duplication in

adaptation to similar selective environments. Journal of Heredity esab049. https://doi.org/10.1093/jhered/esab049

Campbell et al. JoH Corrected Proof.pdf

[29] Hale MC, Campbell MA, and McKinney GJ. A novel chromosome inversion in Arctic charr (Salvelinus alpinus)

identified by population genetic analysis techniques. G3. jkab267. https://doi.org/10.1093/g3journal/jkab267

Hale et al 2021.pdf

[28] Harrington RC, Friedman M, Masaki M, Near TJ, and Campbell MA. 2021. Phylogenomic resolution of the

monotypic and enigmatic Amarsipus, the Bagless Glassfish (Teleostei, Amarsipidae). Zoologica Scripta 00: 1-12. https://doi.org/10.1111/zsc.12477

Harrington et al. 2021.pdf

2020

[27] Thompson NF, Anderson EC, Clemento AJ, Campbell MA, Pearse DE, Hearsey JW, Kinziger AP, and Garza JC. 2020.

A complex phenotype in salmon controlled by a simple change in migratory timing. Science 370: 609-613. https://doi.org/10.1126/science.aba9059

Thompson, Anderson, et al. (2020).pdf

UC Santa Cruz News: https://news.ucsc.edu/2020/10/chinook-salmon.html
Cal Poly Humboldt News: http://now.humboldt.edu/news/a-tiny-difference-in-genetics-is-good-news-for-salmon-conservation/
Science Article: https://www.sciencemag.org/news/2020/10/salmon-study-sheds-light-why-fall-run-fish-are-bigger-their-spring-run-cousins
NOAA Fisheries News: https://www.fisheries.noaa.gov/feature-story/small-genetic-difference-determines-chinook-salmon-migration-timing-new-study-shows

[26] Blumstein DM, Campbell MA, Hale MC, Sutherland BJG, McKinney GJ, Stott W, and Larson WA. 2020. Comparative

genomic analyses and a novel linkage map for cisco (Coregonus aretdi) improves knowledge of chromosomal evolution and rediploidization across salmonids. G3 10(8): 2863–2878. https://doi.org/10.1534/g3.120.401497

Blumstein et al. (2020).pdf

[25] Campbell MA, Buser TJ, Alfaro ME, and López JA. 2020 Addressing incomplete lineage sorting and paralogy in the i

inference of uncertain salmonid phylogenetic relationships. PeerJ 8.e9389. https://doi.org/10.7717/peerj.9389

Campbell et al. 2020 PeerJ.pdf

[24] Campbell MA, Tongboonkua P, Chanet B, and Chen W-J. 2020. The distribution of the recessus orbitalis across

flatfishes (order: Pleuronectiformes). Journal of Fish Biology 97: 293– 297. https://doi.org/10.1111/jfb.14356

Campbell et al. 2020 early view.pdf

2019

Pearse et al. 2019 Sex-dependent dominance maintains migration supergene in rainbow trout. Nature Ecology and

Evolution. Nature Ecology and Evolution. DOI: 10.1038/s41559-019-1044-6

Campbell MA, Chanet B, Chen J-N, Lin M-Y, and Chen W-J. 2019. Origins and relationships of the Pleuronectoidei:

Molecular and morphological analysis of living and fossil taxa. Zoologica Scripta 48: 640-656. DOI: 10.111/zsc.12372

Campbell MA, Hale MC, McKinney GJ, Nichols KM, and Pearse DE. 2019. Long-term conservation of ohnologs through

partial tetrasomy following whole-genome duplication in Salmonidae. G3 9:2017-2028. DOI: 10.1534/g3.119.400070

Griffiths A, Moraga R, Gupta V, Bilton TP, Tausen M, Campbell MA, Ashby R, Nagy I, Khan A, Anderson C, Franzmayr B,

Hancock K, Scott A, Cox MP, Asp T, Mailund T, Schierup MH, and Andersen SU. 2019. Breaking Free: The genomics of allopolyploidy-facilitated niche expansion and adaptation in clover. The Plant Cell 31:1466-1487. DOI: 10.1105/tpc.18.00606

2018

Pearse DE and Campbell MA. Fly fishing for science: Ancestry and adaptation of Rainbow Trout in Yosemite National

Park. 2018. Fisheries 43: 472-484. DOI: 10.1002/fsh.10136

Campbell MA, Robertson DR, Vargas MI, Allen GR, and McMillan WO. 2018. Multilocus molecular systematics of the

circumtropical reef-fish genus Abudefduf (Pomacentridae): history, geography and ecology of speciation. PeerJ 6:e5357. DOI: 10.7717/peerj.5357

Campbell MA, Sado T, Shinzato C, Koyanagi R, Okamoto M, and Miya M. 2018. Multilocus phylogenetic analysis of the

first molecular data from the rare and monotypic Amarsipidae places the family within the Pelagia and highlights limitations of existing data sets in resolving pelagian interrelationships. Molecular Phylogenetics and Evolution 124: 172-180. DOI: 10.1016/j.ympev.2018.03.008

Campbell MA, Tapper BA, Simpson WR, Johnson RD, Mace W, Ram A, Lukito Y, Johnson LJ, Dupont P-Y, Scott DB,

Ganley ARD, and Cox MP. 2018. Epichloë hybrida sp. nov., an emerging model system for investigating fungal allopolyploidy. Mycologia 109:715-729. DOI: 10.1080/00275514.2017.1406174

2017

Campbell MA, Alfarao ME, Belasco M, and López JA. 2017. Early-branching euteleost relationships: Areas of

congruence between concatenation and coalescent model inferences. PeerJ 5:e3548. DOI: 10.7717/peerj.3548

Campbell MA, Nielsen JG, Sado T, Shinzato C, Kanda M, Satoh TP, and Miya M. 2017. Evolutionary affinities of the

unfathomable Parabrotulidae: Molecular data indicate placement of Parabrotula within the Ophidiiformes. Molecular Phylogenetics and Evolution 109:337-342. DOI: 10.1016/j.ympev.2017.02.004

2016

Campbell MA, Ganley ARD, Gabaldón T, and Cox MP. 2016. The case of the missing ancient fungal polyploids. The

American Naturalist 188:602-614. DOI: 10.1086/688763

2015

Campbell MA, Takebayashi N, and López JA. 2015. Beringian sub-refugia revealed in blackfish (Dallia): implications for

understanding the effects of Pleistocene glaciations on Beringian taxa and other arctic aquatic fauna. BMC Evolutionary Biology 15:144. DOI: 10.1186/s12862-015-0413-2

Barta J, Stone JD, Pech J, Sirova D, Adamec L, Campbell MA and Storchova H. 2015. The transcriptome of Ultricularia

vulgaris, a rootless plant with minimalist genome, reveals extreme alternative splicing and only moderate sequence similarity with Ultricularia gibba. BMC Plant Biology 15:78. DOI: 10.1186/s12870-015-0467-8

Duchemin W, Dupont P-Y, Campbell MA, Ganley A and Cox MP. 2015. HyLiTE: Accurate and flexible analysis of gene

expression in allopolyploid species. BMC Bioinformatics 16:8. DOI: 10.1186/s12859-014-0433-8

2014

Campbell MA, López JA, Satoh TP, Chen W-J, and Miya M. 2014. Mitochondrial genomic investigation of flatfish

monophyly. Gene 551: 176-182. DOI: 10.1016/j.gene.2014.08.053

Campbell MA, Larsen A, Collins J, and Collins M. 2014. Winterkill of Alaska blackfish (Dallia pectoralis) in methane

discharging lakes of Denali National Park’s Minchumina Lake basin. Northwestern Naturalist 95:119-125. DOI: 10.1898/NWN13-27.1

Campbell MA, Chen W-J, and López JA. 2014. Molecular data do not provide unambiguous support for the monophyly

of flatfishes (Pleuronectiformes): a reply to Betrancur-R and Ortí. Molecular Phylogenetics and Evolution. 75: 149-153. DOI: 10.1016/j.ympev.2014.02.011

Campbell MA, Sage GK, DeWilde RL, López JA, and Talbot SL. 2014. Development and characterization of 16

polymorphic microsatellite loci for the Alaska blackfish (Esociformes; Dallia pectoralis). Conservation Genetics Resources 6: 349-351. DOI: 10.1007/s12686-013-0091-6

Campbell MA and López JA. 2014. Mitochondrial phylogeography of a Beringian relict: the endemic freshwater genus

of blackfish Dallia (Esociformes). Journal of Fish Biology 84: 523-538. DOI: 10.1111/jfb.12314

2013

Haynes TB, Campbell MA, Neilson JL and López JA. 2013. Molecular identification of seabird remains found in

humpback whale feces. Marine Ornithology 41: 161-166. (pdf)

Campbell MA, Chen W-J, and López JA. 2013. Are flatfishes (Pleuronectiformes) monophyletic? Molecular Phylogenetics

and Evolution 69: 664-673. DOI: 10.1016/j.ympev.2013.07.011

Campbell MA, López JA, Sado T, and Miya M. 2013. Pike and salmon as sister taxa: Detailed intraclade resolution and

divergence time estimation of Esociformes+Salmoniformes based on whole mitochondrial genome sequences. Gene 530: 57-65. DOI: 10.1016/j.gene.2013.07.068

Betancur-R. R, et al. 2013. The Tree of Life and a new classification of bony fishes. PLOS Currents Tree of Life.

DOIE: 10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288

2009

Brodeur RD, Fleming IA, Bennett JM, and Campbell MA. 2009. Summer distribution and feeding of spiny dogfish

(Squalus acanthias) off the Washington and Oregon Coasts. In, Management and Biology of Dogfish Sharks. Gallucci VF, McFarlane GA, and Bargmann GG, eds. (pdf)