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

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

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

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

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

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

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.

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

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

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

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.

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

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

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

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

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

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

Hardoim CCP, Cardinale M, Cúcio ACB, et al. Effects of sample handling and cultivation bias on the specificity of bacterial communities in keratose marine sponges. Frontiers in Microbiology. 2014;5. doi:10.3389/fmicb.2014.00611

Hardoim CCP, Cox CJ, Peixoto RS, Rosado AS, Costa R, van Elsas JD. Diversity of the candidate phylum Poribacteria in the marine sponge Aplysina fulva. Brazilian Journal of Microbiology. 2013;44(1):329 - 334. doi:10.1590/S1517-83822013000100048

A. Shaw J, Melosik I, Cox CJ, Boles SB. Divergent and Reticulate Evolution in Closely Related Species of Sphagnum Section Subsecunda. The Bryologist. 2005;108(3):363 - 376. doi:10.1639/0007-2745(2005)108[0363:DAREIC]2.0.CO;2

Goffinet B, Wickett NJ, Werner O, Ros RM, Shaw AJ, Cox CJ. Distribution and Phylogenetic Significance of the 71-kb Inversion in the Plastid Genome in Funariidae (Bryophyta). Annals of Botany. 2006;99(4):747 - 753. doi:10.1093/aob/mcm010

Huttunen S, Bell N, Bobrova VK, et al. Disentangling knots of rapid evolution: origin and diversification of the moss order Hypnales. Journal of Bryology. 2012;34(3):187 - 211. doi:10.1179/1743282012Y.0000000013

Forrest LL, Wickett N, Cox CJ, Goffinet B. Deep sequencing of Ptilidium (Ptilidiaceae) suggests evolutionary stasis in liverwort plastid genome structure. Plant Ecology and Evolution. 2011;144(1):1 - 15. doi:10.5091/plecevo.2011.535

Williams TA, Foster PG, Nye TMW, Cox CJ, Embley TM. A congruent phylogenomic signal places eukaryotes within the Archaea. Proceedings of the Royal Society B: Biological Sciences. 2012;279(1749):4870 - 4879. doi:10.1098/rspb.2012.1795

Cox CJ, Li B, Foster PG, Embley TM, Civan P. Conflicting Phylogenies for Early Land Plants are Caused by Composition Biases among Synonymous Substitutions. Systematic Biology. 2014;63(2):272 - 279. doi:10.1093/sysbio/syt109