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A. Shaw J, Devos N, Cox CJ, et al. Peatmoss (Sphagnum) diversification associated with Miocene Northern Hemisphere climatic cooling?. Molecular Phylogenetics and Evolution. 2010;55(3):1139 - 1145. doi:10.1016/j.ympev.2010.01.020
Shaw AJ, Cox CJ, Goffinet B, Buck WR, Boles SB. PHYLOGENETIC EVIDENCE OF A RAPID RADIATION OF PLEUROCARPOUS MOSSES (BRYOPHYTA). Evolution. 2003;57(10):2226 - 2241. doi:10.1111/evo.2003.57.issue-1010.1111/j.0014-3820.2003.tb00235.x
Goffinet B, Shaw AJ, Cox CJ. Phylogenetic inferences in the dung-moss family Splachnaceae from analyses of cpDNA sequence data and implications for the evolution of entomophily. American Journal of Botany. 2004;91(5):748 - 759. doi:10.3732/ajb.91.5.748
Goffinet B, Cox CJ. Phylogenetic Relationships Among Basal-most Arthrodontous Mosses with Special Emphasis on the Evolutionary Significance of the Funariineae. The Bryologist. 2000;103(2):212 - 223. doi:10.1639/0007-2745(2000)103[0212:PRABMA]2.0.CO;2
Shaw J, Cox CJ, Boles SB. Phylogenetic Relationships Among Sphagnum Sections: Hemitheca, Isocladus, and Subsecunda. The Bryologist. 2004;107(2):189 - 196. doi:10.1639/0007-2745(2004)107[0189:PRASSH]2.0.CO;2
Cox CJ, Goffinet B, Newton AE, A. Shaw J, Hedderson TAJ. Phylogenetic Relationships Among the Diplolepideous-alternate Mosses (Bryidae) Inferred from Nuclear and Chloroplast DNA Sequences. The Bryologist. 2000;103(2):224 - 241. doi:10.1639/0007-2745(2000)103[0224:PRATDA]2.0.CO;2
Cox CJ, Goffinet B, A. Shaw J, Boles SB. Phylogenetic Relationships among the Mosses Based on Heterogeneous Bayesian Analysis of Multiple Genes from Multiple Genomic Compartments. Systematic Botany. 2004;29(2):234 - 250. doi:10.1600/036364404774195458
Hedderson TA, Murray DJ, Cox CJ, Nowell TL. Phylogenetic Relationships of Haplolepideous Mosses (Dicranidae) Inferred from rps4 Gene Sequences. Systematic Botany. 2004;29(1):29 - 41. doi:10.1600/036364404772973960
Hedderson TA, Cox CJ, J. Gibbings G. Phylogenetic Relationships of the Wardiaceae (Musci); Evidence from 18s rRNA and rps4 Gene Sequences. The Bryologist. 1999;102(1):26. doi:10.2307/3244455
Cox CJ, Hedderson TAJ. Phylogenetic relationships within the moss family Bryaceae based on chloroplast DNA evidence. Journal of Bryology. 2003;25(1):31 - 40. doi:10.1179/037366803125002635
Hardoim CCP, Esteves AIS, Pires FR, et al. Phylogenetically and spatially close marine sponges harbour divergent bacterial communities. PLoS One. 2012;7(12):e53029. doi:10.1371/journal.pone.0053029
Williams TA, Cox CJ, Foster PG, Szöllősi GJ, T. Embley M. Phylogenomics provides robust support for a two-domains tree of life. Nature Ecology & Evolution. 2019. doi:10.1038/s41559-019-1040-x
Diezmann S, Cox CJ, Schonian G, Vilgalys RJ, Mitchell TG. Phylogeny and Evolution of Medical Species of Candida and Related Taxa: a Multigenic Analysis. Journal of Clinical Microbiology. 2004;42(12):5624 - 5635. doi:10.1128/JCM.42.12.5624-5635.2004
Vanderpoorten A, Hedenäs L, Cox CJ, Shaw AJ. Phylogeny and Morphological Evolution of the Amblystegiaceae (Bryopsida). Molecular Phylogenetics and Evolution. 2002;23(1):1 - 21. doi:10.1006/mpev.2001.1067
Shaw JA, Holz I, Cox CJ, Goffinet B. Phylogeny, Character Evolution, and Biogeography of the Gondwanic Moss Family Hypopterygiaceae (Bryophyta). Systematic Botany. 2008;33(1):21 - 30. doi:10.1600/036364408783887311
Pedersen N, Cox CJ, Hedenäs L. Phylogeny of the Moss Family Bryaceae Inferred from Chloroplast DNA Sequences and Morphology. Systematic BotanySystematic Botany. 2003;28(3):471 - 482. http://www.bioone.org/doi/abs/10.1043/02-46.1.
A. Shaw J, Cox CJ, Boles SB. Phylogeny, Species Delimitation, and Recombination in Sphagnum Section Acutifolia. Systematic Botany. 2005;30(1):16 - 33. doi:10.1600/0363644053661823
Shaw AJ, Cox CJ, Boles SB. Polarity of peatmoss (Sphagnum) evolution: who says bryophytes have no roots?. American Journal of Botany. 2003;90(12):1777 - 1787. doi:10.3732/ajb.90.12.1777
Foster PG, Cox CJ, Embley TM. The primary divisions of life: a phylogenomic approach employing composition-heterogeneous methods. Philosophical Transactions of the Royal Society B: Biological Sciences. 2009;364(1527):2197 - 2207. doi:10.1098/rstb.2009.0034
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James TY, Kauff F, Schoch CL, et al. Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature. 2006;443(7113):818 - 822. doi:10.1038/nature05110
Liu Y, Johnson MG, Cox CJ, et al. Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes. Nature communications. 2019;10:1485.
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Vanderpoorten A, Goffinet B, Hedenäs L, Cox CJ, Shaw AJ. A taxonomic reassessment of the Vittiaceae (Hypnales, Bryopsida): evidence from phylogenetic analyses of combined chloroplast and nuclear sequence data. Plant Systematics and Evolution. 2003;241(1-2):1 - 12. doi:10.1007/s00606-003-0032-z
Civán P, Craig H, Cox CJ, Brown TA. Three geographically separate domestications of Asian rice. Nature Plants. 2015;1(11):15164. doi:10.1038/nplants.2015.164
Ramos AA, Weydmann A, Cox CJ, Canario AVM, Serrão EA, Pearson GA. A transcriptome resource for the copepod Calanus glacialis across a range of culture temperatures. Mar Genomics. 2015;23:27-9. doi:10.1016/j.margen.2015.03.014
Ramos AA, Weydmann A, Cox CJ, Canario AVM, Serrão EA, Pearson GA. A transcriptome resource for the copepod Calanus glacialis across a range of culture temperatures. Marine Genomics. 2015;23:27 - 29. doi:10.1016/j.margen.2015.03.014