Microbial Ecology & Evolution
Publications
2024
53. Hink, L., Bachtsevani, E., Meng, Y., Sedlacek, C.J., Lee, S., Daims, H., Wagner, M., Gubry-Rangin, C., De Boer, W., Hazard, C., Prosser, J.I., Nicol, G.W., 2024. Acidotolerant soil nitrite oxidiser ‘Candidatus Nitrobacter laanbroekii’ NHB1 alleviates constraints on growth of acidophilic soil ammonia oxidisers. bioRxiv. doi:10.1101/2024.07.06.601931
52. Williams, T.A., Davin, A.A., Szánthó, L.L., Stamatakis, A., Wahl, N.A., Woodcroft, B.J., Soo, R.M., Eme, L., Sheridan, P.O., Gubry-Rangin, C., Spang, A., Hugenholtz, P., Szöllősi, G.J., 2024. Phylogenetic reconciliation: making the most of genomes to understand microbial ecology and evolution. The ISME Journal wrae129. doi:10.1093/ismejo/wrae129
51. Sepehrnia, N., Gubry-Rangin, C., Tanino, Y., Hallett, P.D., 2024. Microplastics alter soil structural stability as quantified by high-energy moisture characteristics. Journal of Hazardous Materials 476, 134940. doi:10.1016/j.jhazmat.2024.134940
50. Lehtovirta-Morley, L.E., Ge, C., Ross, J., Yao, H., Hazard, C., Gubry-Rangin, C., Prosser, J., Nicol, G., 2024. Nitrosotalea devaniterrae gen. nov., sp. nov., and Nitrosotalea sinensis sp. nov., two acidophilic ammonia oxidising archaea isolated from acidic soil, and proposal of the new order Nitrosotaleales ord. nov. within the class Nitrososphaeria of the phylum Nitrososphaerota. International Journal of Systematic and Evolutionary Microbiology. (in press)
49. Tan, C., Yin, C., Zhang, L., Zeng, Y., Gubry-Rangin, C., Chen, H., Gao, Z., Peng, H., Li, T., Liang, Y., 2024. Deciphering the functional importance of comammox vs. canonical ammonia oxidisers in nitrification and N2O emissions in acidic agricultural soils. Soil Biology and Biochemistry 193, 109415. doi:10.1016/j.soilbio.2024.109415
48. Deng, N., Gubry-Rangin, C., Song, X.-T., Ju, X.-T., Liu, S.-Y., Shen, J.-P., Di, H., Han, L.-L., Zhang, L.-M., 2024. AOB Nitrosospira cluster 3a.2 (D11) dominates N2O emissions in fertilised agricultural soils. Journal of Environmental Management 355, 120504. doi:10.1016/j.jenvman.2024.120504
2023
47. Sheridan, P.O., Meng, Y., Williams, T.A., Gubry-Rangin, C., 2023. Genomics of soil depth niche partitioning in the Thaumarchaeota family Gagatemarchaeaceae. Nature Communications 14, 7305. doi:10.1038/s41467-023-43196-0
46. Kaur-Bhambra, J., Rajakulendran, J.E., Bodington, D., Jaspars, M., Gubry-Rangin, C., 2023. Rice biological nitrification inhibition efficiency depends on plant genotype exudation rate. bioRxiv. doi:10.1101/2023.05.31.543046
45. Mynard, P., Algar, A.C., Lancaster, L.T., Bocedi, G., Fahri, F., Gubry-Rangin, C., Lupiyaningdyah, P., Nangoy, M., Osborne, O.G., Papadopulos, A.S., 2023. Impact of phylogenetic tree completeness and mis-specification of sampling fractions on trait dependent diversification models. Systematic Biology 72, 106–119. doi:10.1093/sysbio/syad001
2022
44. Herrera‐Alsina, L., Algar, A.C., Lancaster, L.T., Ornelas, J.F., Bocedi, G., Papadopulos, A.S.T., Gubry‐Rangin, C., Osborne, O.G., Mynard, P., Sudiana, I.M., Lupiyaningdyah, P., Juliandi, B., Travis, J.M.J., 2022. The missing link in biogeographic reconstruction: Accounting for lineage extinction rewrites history. Journal of Biogeography 49, 1941–1951. doi:10.1111/jbi.14489
43. Harris, B.J., Sheridan, P.O., Davín, A.A., Gubry-Rangin, C., Szöllősi, G.J., Williams, T.A., 2022. Rooting species trees using gene tree-species tree reconciliation, in: Luo, H. (Ed.), Environmental Microbial Evolution, Methods in Molecular Biology. Springer US, New York, NY, pp. 189–211. doi:10.1007/978-1-0716-2691-7_9
42. Herrera-Alsina, L., Mynard, P., Sudiana, I.M., Juliandi, B., Travis, J.M.J., Gubry-Rangin, C., 2022. Reconstruction of state-dependent diversification: integrating phenotypic traits into molecular phylogenies, in: Luo, H. (Ed.), Environmental Microbial Evolution, Methods in Molecular Biology. Springer US, New York, NY, pp. 305–326. doi:10.1007/978-1-0716-2691-7_15
41. Sheridan, P.O., Meng, Y., Williams, T.A., Gubry-Rangin, C., 2022. Recovery of Lutacidiplasmatales archaeal order genomes suggests convergent evolution in Thermoplasmatota. Nature Communications 13, 4110. doi:10.1038/s41467-022-31847-7
40. Osborne, O.G., Fell, H.G., Atkins, H., Van Tol, J., Phillips, D., Herrera‐Alsina, L., Mynard, P., Bocedi, G., Gubry‐Rangin, C., Lancaster, L.T., Creer, S., Nangoy, M., Fahri, F., Lupiyaningdyah, P., Sudiana, I.M., Juliandi, B., Travis, J.M.J., Papadopulos, A.S.T., Algar, A.C., 2022. Fauxcurrence: simulating multi‐species occurrences for null models in species distribution modelling and biogeography. Ecography 2022, e05880. doi:10.1111/ecog.05880
39. Kaur-Bhambra, J., Wardak, D.L.R., Prosser, J.I., Gubry-Rangin, C., 2022. Revisiting plant biological nitrification inhibition efficiency using multiple archaeal and bacterial ammonia-oxidising cultures. Biology and Fertility of Soils 58, 241–249. doi:10.1007/s00374-020-01533-1
38. Potts, L.D., Douglas, A., Perez Calderon, L.J., Anderson, J.A., Witte, U., Prosser, J.I., Gubry-Rangin, C., 2022. Chronic environmental perturbation influences microbial community assembly patterns. Environmental Science & Technology 56, 2300–2311. doi:10.1021/acs.est.1c05106
37. Zhao, J., Wang, B., Zhou, X., Alam, M.S., Fan, J., Guo, Z., Zhang, H., Gubry-Rangin, C., Zhongjun, J., 2022. Long-term adaptation of acidophilic archaeal ammonia oxidisers following different soil fertilisation histories. Microbial Ecology 83, 424–435. doi:10.1007/s00248-021-01763-2
2021
36. Pan, H., Feng, H., Liu, Y., Lai, C.-Y., Zhuge, Y., Zhang, Q., Tang, C., Di, H., Jia, Z., Gubry-Rangin, C., Li, Y., Xu, J., 2021. Grazing weakens competitive interactions between active methanotrophs and nitrifiers modulating greenhouse-gas emissions in grassland soils. ISME Communications 1, 74. doi:10.1038/s43705-021-00068-2
35. Bello, M.O., Aigle, A., Meng, Y., Prosser, J.I., Gubry-Rangin, C., 2021. Preferential temperature and ammonia concentration for in-situ growth of Candidatus Nіtrоѕосоѕmісuѕ ammonia oxidising archaea. Soil Biology and Biochemistry 162, 108405. doi:10.1016/j.soilbio.2021.108405
34. Herrera‐Alsina, L., Algar, A.C., Bocedi, G., Gubry‐Rangin, C., Lancaster, L.T., Mynard, P., Osborne, O.G., Papadopulos, A.S.T., Creer, S., Nangoy, M., Fahri, F., Lupiyaningdyah, P., Sudiana, I.M., Juliandi, B., Travis, J.M.J., 2021. Ancient geological dynamics impact neutral biodiversity accumulation and are detectable in phylogenetic reconstructions. Global Ecology and Biogeography 30, 1633–1642. doi:10.1111/geb.13326
2020
33. Sheridan, P.O., Raguideau, S., Quince, C., Holden, J., Zhang, L., Thames Consortium, Gaze, W.H., Holden, J., Mead, A., Raguideau, S., Quince, C., Singer, A.C., Wellington, E.M.H., Zhang, L., Williams, T.A., Gubry-Rangin, C., 2020. Gene duplication drives genome expansion in a major lineage of Thaumarchaeota. Nature Communications 11, 5494. doi:10.1038/s41467-020-19132-x
32. Biggs-Weber, E., Aigle, A., Prosser, J.I., Gubry-Rangin, C., 2020. Oxygen preference of deeply-rooted mesophilic thaumarchaeota in forest soil. Soil Biology and Biochemistry 148, 107848. doi:10.1016/j.soilbio.2020.107848
31. Aigle, A., Gubry‐Rangin, C., Thion, C., Estera‐Molina, K.Y., Richmond, H., Pett‐Ridge, J., Firestone, M.K., Nicol, G.W., Prosser, J.I., 2020. Experimental testing of hypotheses for temperature‐ and pH‐based niche specialization of ammonia oxidizing archaea and bacteria. Environmental Microbiology 22, 4032–4045. doi:10.1111/1462-2920.15192
30. Zhao, J., Meng, Y., Drewer, J., Skiba, U.M., Prosser, J.I., Gubry-Rangin, C., 2020b. Differential ecosystem function stability of ammonia-oxidizing archaea and bacteria following short-term environmental perturbation. mSystems 5, e00309-20. doi:10.1128/mSystems.00309-20
29. Zhao, J., Bello, M.O., Meng, Y., Prosser, J.I., Gubry-Rangin, C., 2020a. Selective inhibition of ammonia oxidising archaea by simvastatin stimulates growth of ammonia oxidising bacteria. Soil Biology and Biochemistry 141, 107673. doi:10.1016/j.soilbio.2019.107673
28. Drewer, J., Zhao, J., Leduning, M.M., Levy, P.E., Sentian, J., Gubry-Rangin, C., Skiba, U.M., 2020. Linking nitrous oxide and nitric oxide fluxes to microbial communities in tropical forest soils and oil palm plantations in Malaysia in laboratory incubations. Frontiers in Forests and Global Change 3, 4. doi:10.3389/ffgc.2020.00004
27. Prosser, J.I., Hink, L., Gubry‐Rangin, C., Nicol, G.W., 2020. Nitrous oxide production by ammonia oxidizers: physiological diversity, niche differentiation and potential mitigation strategies. Global Change Biology 26, 103–118. doi:10.1111/gcb.14877
2019
26. Aigle, A., Prosser, J.I., Gubry-Rangin, C., 2019. The application of high-throughput sequencing technology to analysis of amoA phylogeny and environmental niche specialisation of terrestrial bacterial ammonia-oxidisers. Environmental Microbiome 14, 3. doi:10.1186/s40793-019-0342-6
25. Nicol, G.W., Hink, L., Gubry-Rangin, C., Prosser, J.I., Lehtovirta-Morley, L.E., 2019. Genome Sequence of “Candidatus Nitrosocosmicus franklandus” C13, a Terrestrial Ammonia-Oxidizing Archaeon. Microbiology Resource Announcements 8, e00435-19. doi:10.1128/MRA.00435-19
24. Potts, L.D., Calderon, L.J.P., Gubry-Rangin, C., Witte, U., Anderson, J.A., 2019. Characterisation of microbial communities of drill cuttings piles from offshore oil and gas installations. Marine Pollution Bulletin 142, 169–177. doi:10.1016/j.marpolbul.2019.03.014
23. Bello, M.O., Thion, C., Gubry-Rangin, C., Prosser, J.I., 2019. Differential sensitivity of ammonia oxidising archaea and bacteria to matric and osmotic potential. Soil Biology and Biochemistry 129, 184–190. doi:10.1016/j.soilbio.2018.11.017
2018
22. Gubry-Rangin, C., Williams, W., Prosser, J.I., 2018. Approaches to understanding the ecology and evolution of understudied terrestrial archaeal ammonia-oxidisers. Emerging Topics in Life Sciences 2, 619–628. doi:10.1042/ETLS20180018
21. Potts, L.D., Perez Calderon, L.J., Gontikaki, E., Keith, L., Gubry-Rangin, C., Anderson, J.A., Witte, U., 2018. Effect of spatial origin and hydrocarbon composition on bacterial consortia community structure and hydrocarbon biodegradation rates. FEMS Microbiology Ecology 94, fiy127. doi:10.1093/femsec/fiy127
20. Perez Calderon, L.J., Potts, L.D., Gontikaki, E., Gubry-Rangin, C., Cornulier, T., Gallego, A., Anderson, J.A., Witte, U., 2018. Bacterial community response in deep Faroe-Shetland channel sediments following hydrocarbon entrainment with and without dispersant addition. Frontiers in Marine Science 5, 159. doi:10.3389/fmars.2018.00159
19. Hink, L., Gubry-Rangin, C., Nicol, G.W., Prosser, J.I., 2018. The consequences of niche and physiological differentiation of archaeal and bacterial ammonia oxidisers for nitrous oxide emissions. The ISME Journal 12, 1084–1093. doi:10.1038/s41396-017-0025-5
2017
18. Hink, L., Lycus, P., Gubry-Rangin, C., Frostegård, Å., Nicol, G.W., Prosser, J.I., Bakken, L.R., 2017. Kinetics of NH3-oxidation, NO-turnover, N2O-production and electron flow during oxygen depletion in model bacterial and archaeal ammonia oxidisers. Environmental Microbiology 19, 4882–4896. doi:10.1111/1462-2920.13914
17. Herbold, C.W., Lehtovirta‐Morley, L.E., Jung, M., Jehmlich, N., Hausmann, B., Han, P., Loy, A., Pester, M., Sayavedra‐Soto, L.A., Rhee, S., Prosser, J.I., Nicol, G.W., Wagner, M., Gubry‐Rangin, C., 2017. Ammonia-oxidising archaea living at low pH: insights from comparative genomics. Environmental Microbiology 19, 4939–4952. doi:10.1111/1462-2920.13971
16. Gubry-Rangin, C., Novotnik, B., Mandič-Mulec, I., Nicol, G.W., Prosser, J.I., 2017. Temperature responses of soil ammonia-oxidising archaea depend on pH. Soil Biology and Biochemistry 106, 61–68. doi:10.1016/j.soilbio.2016.12.007
15. Viollet, A., Pivato, B., Mougel, C., Cleyet-Marel, J.-C., Gubry-Rangin, C., Lemanceau, P., Mazurier, S., 2017. Pseudomonas fluorescens C7R12 type III secretion system impacts mycorrhization of Medicago truncatula and associated microbial communities. Mycorrhiza 27, 23–33. doi:10.1007/s00572-016-0730-3
2016
14. Sinclair, L., Ijaz, U.Z., Jensen, L.J., Coolen, M.J., Gubry-Rangin, C., Chroňáková, A., Oulas, A., Pavloudi, C., Schnetzer, J., Weimann, A., 2016. Seqenv: linking sequences to environments through text mining. PeerJ 4, e2690. doi:10.7717/peerj.2690
13. Macqueen, D.J., Gubry‐Rangin, C., 2016. Molecular adaptation of ammonia monooxygenase during independent pH specialization in Thaumarchaeota. Molecular Ecology 25, 1986–1999. doi:10.1111/mec.13607
12. Lehtovirta-Morley, L.E., Ross, J., Hink, L., Weber, E.B., Gubry-Rangin, C., Thion, C., Prosser, J.I., Nicol, G.W., 2016. Isolation of “Candidatus Nitrosocosmicus franklandus”, a novel ureolytic soil archaeal ammonia oxidiser with tolerance to high ammonia concentration. FEMS Microbiology Ecology 92, fiw057. doi:10.1093/femsec/fiw057
11. Oton, E.V., Quince, C., Nicol, G.W., Prosser, J.I., Gubry-Rangin, C., 2016. Phylogenetic congruence and ecological coherence in terrestrial thaumarchaeota. The ISME Journal 10, 85–96. doi:10.1038/ismej.2015.101
2015
10. Gubry-Rangin, C., Kratsch, C., Williams, T.A., McHardy, A.C., Embley, T.M., Prosser, J.I., Macqueen, D.J., 2015. Coupling of diversification and pH adaptation during the evolution of terrestrial Thaumarchaeota. Proceedings of the National Academy of Sciences 112, 9370–9375. doi:10.1073/pnas.1419329112
9. Stempfhuber, B., Engel, M., Fischer, D., Neskovic-Prit, G., Wubet, T., Schöning, I., Gubry-Rangin, C., Kublik, S., Schloter-Hai, B., Rattei, T., Welzl, G., Nicol, G.W., Schrumpf, M., Buscot, F., Prosser, J.I., Schloter, M., 2015. pH as a driver for ammonia-oxidizing archaea in forest soils. Microbial Ecology 69, 879–883. doi:10.1007/s00248-014-0548-5
8. Weber, E.B., Lehtovirta-Morley, L.E., Prosser, J.I., Gubry-Rangin, C., 2015. Ammonia oxidation is not required for growth of Group 1.1 c soil Thaumarchaeota. FEMS Microbiology Ecology 91, fiv001. doi:10.1093/femsec/fiv001
2013
7. Gubry-Rangin, C., Béna, G., Cleyet-Marel, J.-C., Brunel, B., 2013. Definition and evolution of a new symbiovar, sv. rigiduloides, among Ensifer meliloti efficiently nodulating Medicago species. Systematic and Applied Microbiology 36, 490–496. doi:10.1016/j.syapm.2013.06.004
2011
6. Gubry-Rangin, C., Hai, B., Quince, C., Engel, M., Thomson, B.C., James, P., Schloter, M., Griffiths, R.I., Prosser, J.I., Nicol, G.W., 2011. Niche specialization of terrestrial archaeal ammonia oxidizers. Proceedings of the National Academy of Sciences 108, 21206–21211. doi:10.1073/pnas.1109000108
2010
5. Gubry-Rangin, C., Nicol, G.W., Prosser, J.I., 2010. Archaea rather than bacteria control nitrification in two agricultural acidic soils. FEMS Microbiology Ecology 74, 566–574. doi:10.1111/j.1574-6941.2010.00971.x
4. Stopnišek, N., Gubry-Rangin, C., Höfferle, Š., Nicol, G.W., Mandič-Mulec, I., Prosser, J.I., 2010. Thaumarchaeal ammonia oxidation in an acidic forest peat soil is not influenced by ammonium amendment. Applied and Environmental Microbiology 76, 7626–7634. doi:10.1128/AEM.00595-10
3. Gubry-Rangin, C., Garcia, M., Béna, G., 2010. Partner choice in Medicago Truncatula–Sinorhizobium symbiosis. Proceedings of the Royal Society B: Biological Sciences 277, 1947–1951. doi:10.1098/rspb.2009.2072
2008
2. Rangin, C., Brunel, B., Cleyet-Marel, J.-C., Perrineau, M.-M., Béna, G., 2008. Effects of Medicago Truncatula genetic diversity, rhizobial competition, and strain effectiveness on the diversity of a natural Sinorhizobium species community. Applied and Environmental Microbiology 74, 5653–5661. doi:10.1128/AEM.01107-08
2005
1. Zaremski, A., Ducousso, M., Domergue, O., Fardoux, J., Rangin, C., Fouquet, D., Joly, H., Sales, C., Dreyfus, B., Prin, Y., 2005. In situ molecular detection of some white-rot and brown-rot basidiomycetes infecting temperate and tropical woods. Canadian Journal of Forest Research 35, 1256–1260. doi:10.1139/x05-056