Vanderpoorten A, Shaw AJ, Cox CJ. Evolution of multiple paralogous adenosine kinase genes in the moss genus Hygroamblystegium: phylogenetic implications. Molecular Phylogenetics and Evolution. 2004;31(2):505 - 516. doi:10.1016/j.ympev.2003.09.020

Newton AE, Cox CJ, Duckett JG, et al. Evolution of the Major Moss Lineages: Phylogenetic Analyses Based on Multiple Gene Sequences and Morphology. The Bryologist. 2000;103(2):187 - 211. doi:10.1639/0007-2745(2000)103[0187:EOTMML]2.0.CO;2

Silva IAL, Cox CJ, Leite RB, M. Cancela L, Conceição N. Evolutionary conservation of TFIIH subunits: implications for the use of zebrafish as a model to study TFIIH function and regulation. Comp Biochem Physiol B Biochem Mol Biol. 2014;172-173:9-20. doi:10.1016/j.cbpb.2014.03.007

Laenen B, Shaw B, Schneider H, et al. Extant diversity of bryophytes emerged from successive post-Mesozoic diversification bursts. Nat Commun. 2014;5:5134. doi:10.1038/ncomms6134

Waeschenbach A, Cox CJ, Littlewood DTJ, Porter JS, Taylor PD. First molecular estimate of cyclostome bryozoan phylogeny confirms extensive homoplasy among skeletal characters used in traditional taxonomy. Molecular Phylogenetics and Evolution. 2009;52(1):241 - 251. doi:10.1016/j.ympev.2009.02.002

Vogel JC, Rumsey FJ, Russell SJ, et al. Genetic structure, reproductive biology and ecology of isolated populations of Asplenium csikii (Aspleniaceae, Pteridophyta). Heredity. 1999;83(5):604 - 612. doi:10.1038/sj.hdy.6886120

Karimi E, Keller-Costa T, Slaby BM, et al. Genomic blueprints of sponge-prokaryote symbiosis are shared by low abundant and cultivatable Alphaproteobacteria. Scientific reports. 2019;9:1999.

A. Shaw J, Cox CJ, Boles SB. Global patterns in peatmoss biodiversity. Molecular Ecology. 2003;12(10):2553 - 2570. doi:10.1046/j.1365-294X.2003.01929.x

Louro B, De Moro G, Garcia C, et al. A haplotype-resolved draft genome of the European sardine (Sardina pilchardus). GigaScience. 2019;8. doi:10.1093/gigascience/giz059

Rosa J, Cox CJ, M. Cancela L, Laizé V. Identification of a fish short-chain dehydrogenase/reductase associated with bone metabolism. Gene. 2018;645:137 - 145. doi:10.1016/j.gene.2017.12.021

de Sousa CBruno, Cox CJ, Brito L, et al. Improved phylogeny of brown algae Cystoseira (Fucales) from the Atlantic-Mediterranean region based on mitochondrial sequences. PloS one. 2019;14:e0210143.

Laenen B, Machac A, S. Gradstein R, et al. Increased diversification rates follow shifts to bisexuality in liverworts. New Phytologist. 2016;210(3):1121 - 1129. doi:10.1111/nph.13835

Puttick MN, Morris JL, Williams TA, et al. The Interrelationships of Land Plants and the Nature of the Ancestral Embryophyte. Current Biology. 2018;28(5):733 - 745.e2. doi:10.1016/j.cub.2018.01.063

Cox CJ. Land Plant Molecular Phylogenetics: A Review with Comments on Evaluating Incongruence Among Phylogenies. Critical Reviews in Plant Sciences. 2018;37(2-3):113 - 127. doi:10.1080/07352689.2018.1482443

Almeida SC, Neiva J, Sousa F, et al. A low‐latitude species pump: Peripheral isolation, parapatric speciation and mating‐system evolution converge in a marine radiationAbstract. Molecular Ecology. 2022;31(18):4797 - 4817. doi:10.1111/mec.v31.1810.1111/mec.16623

Ettamimi S, Carlier JD, Cox CJ, et al. A meta-taxonomic investigation of the prokaryotic diversity of water bodies impacted by acid mine drainage from the São Domingos mine in southern Portugal. Extremophiles. 2019. doi:10.1007/s00792-019-01136-1

Pearson GA, Lago-Lestón A, Cánovas F, et al. Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula. ISME J. 2015;9(10):2275-89. doi:10.1038/ismej.2015.40

Pearson GA, Lago-Lestón A, Cánovas F, et al. Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula. The ISME Journal. 2015;9(10):2275 - 2289. doi:10.1038/ismej.2015.40

Liu Y, Cox CJ, Wang W, Goffinet B. Mitochondrial Phylogenomics of Early Land Plants: Mitigating the Effects of Saturation, Compositional Heterogeneity, and Codon-Usage Bias. Systematic Biology. 2014;63(6):862 - 878. doi:10.1093/sysbio/syu049

Sousa F, Civán P, Brazão J, Foster PG, Cox CJ. The mitochondrial phylogeny of land plants shows support for Setaphyta under composition-heterogeneous substitution models,. PeerJ. 2020;8:e8995. doi:10.7717/peerj.899510.7717/peerj.8995/fig-110.7717/peerj.8995/fig-210.7717/peerj.8995/table-110.7717/peerj.8995/supp-110.7717/peerj.8995/supp-210.7717/peerj.8995/supp-310.7717/peerj.8995/supp-4

Califano G, Castanho S, Soares F, et al. Molecular Taxonomic Profiling of Bacterial Communities in a Gilthead Seabream (Sparus aurata) Hatchery. Frontiers in Microbiology. 2017;8. doi:10.3389/fmicb.2017.00204

Cox CJ, Goffinet B, Wickett NJ, Boles SB, Shaw AJ. Moss diversity: A molecular phylogenetic analysis of genera. Phytotaxa. 2010;9(1):175. doi:10.11646/phytotaxa.9.110.11646/phytotaxa.9.1.10

Martínez-Garrido J, Serrão EA, Engelen AH, Cox CJ, García-Murillo P, Gonzalez-Wangüemert M. Multilocus genetic analyses provide insight into speciation and hybridization in aquatic grasses, genus Ruppia. Biological Journal of the Linnean Society. 2016;117(2):177-191.

Martínez-Garrido J, Serrão EA, Engelen AH, Cox CJ, García-Murillo P, Gonzalez-Wangüemert M. Multilocus genetic analyses provide insight into speciation and hybridization in aquatic grasses, genus Ruppia. Biological Journal of the Linnean Society. 2016;117(2):177 - 191. doi:10.1111/bij.12666

Martínez-Garrido J, Serrão EA, Engelen AH, Cox CJ, García-Murillo P, Gonzalez-Wangüemert M. Multilocus genetic analyses provide insight into speciation and hybridization in aquatic grasses, genus Ruppia. Biological Journal of the Linnean Society. 2016;117(2):177-191. doi:10.1111/bij.12666