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Microbiology Logo Microbiology & Immunology
Te Tari Moromoroiti me te Ārai Mate

Publications

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(*corresponding author, supervised students/postdocs underlined)

Published

van der Weerden T J, Rutherford AJ, de Klein CAM, Ganasamurthy S & Morales SE* (2021). Elevating soil pH does not reduce N2O emissions from urine deposited onto pastoral soils. New Zealand Journal of Agricultural Research, 1-23, doi:10.1080/00288233.2021.1935280

Hassanzadeh B, Thomson B, Deans FWenley JLockwood S, Currie K, Morales SE, Steindler L, Sañudo‐Wilhelmy SA, Baltar F & Gómez‐Consarnau L. (2021) Microbial rhodopsins are increasingly favoured over chlorophyll in High Nutrient Low Chlorophyll waters. Environmental Microbiology Reports, doi:10.1111/1758-2229.12948 

Ganasamurthy S, Rex D, Samad MS, Richards KG, Lanigan GJ, Grelet G, Clough TJ, and Morales SE* (2021). Competition and community succession link N transformation and greenhouse gas emissions in urine patches. Science of the Total Environment. doi: 10.1016/j.scitotenv.2021.146318

Espinel-Velasco N, Tobias-Hünefeldt SP, Karelitz S, Hoffmann LJ, Morales SE, Lamare MD (2021). Reduced seawater pH alters marine biofilms with impacts formarine polychaete larval settlement. Marine Environmental Research. https://doi.org/10.1016/j.marenvres.2021.105291

Tobias-Hünefeldt SP, Wenley J, Baltar F, and Morales SE* (2020). Ecological drivers switch from bottom–up to top–down during model microbial community successions. The ISME Journal. doi: 10.1038/s41396-020-00833-6.

Bagnaro A, Baltar F, Brownstein G, Lee WG, Morales SE, Pritchard DW, & Hepburn CD (2020). Reducing the arbitrary: Fuzzy detection of microbial ecotones and ecosystems–focus on the pelagic environment. Environmental Microbiome, 15, 1-14.  doi: 10.1186/s40793-020-00363-w

Highton MP, Bakken LR, Dörsch P, Wakelin S, de Klein CAM, Molstad L, Morales SE* (2020). Soil N2O emission potential falls along a denitrification phenotype gradient linked to differences in microbiome, rainfall and carbon availability. Soil Biology and Biochemistry 150.

Nelson K, Baltar F, Lamare M, Morales SE*(2020).Ocean acidification affects microbial community and invertebrate settlement on biofilms. Sci Rep10: 3274.

Kelly WJ, Leahy SC, Kamke J, Soni P, Koike S, Mackie R, Seshadri R, Cook GM, Morales SE, Greening C, Attwood GT (2019). Occurrence and expression of genes encoding methyl-compound production in rumen bacteria. Animal Microbiome. 1

Kaminsky R, Wakelin S, Highton Highton, Samad MS, and Morales, SE* (2019). Resolving broad patterns of prokaryotic community structure in New Zealand pasture soils. New Zealand Journal of Agricultural Research. DOI: 10.1080/00288233.2019.1678491

Rex D, Clough TJ, Richards KG, Condrom LM, de Klein C, Morales SE, Lanigan GJ. (2019).Impact of nitrogen compounds on fungal and bacterial contributions to codenitrification in a pasture soil. Scientific Reports 9, doi:10.1038/s41598-019-49989-y 

Tobias-Hünefeldt, SP, Wing, SR, Espinel-Velasco, N, Baltar, F, & Morales SE* (2019). Depth and location influence prokaryotic and eukaryotic microbial community structure in New Zealand fjords. Science of the Total Environment. doi: 10.1016/j.scitotenv.2019.07.313

Greening C, Geier R, Wang C, Woods LC, Morales SE, McDonald MJ, et al. (2019). Diverse hydrogen production and consumption pathways influence methane production in ruminants. ISME Journal. doi: 10.1038/s41396-019-0464-2

Morales SE*, Biswas A, Herndl GJ, Baltar F. (2019). Global Structuring of Phylogenetic and Functional Diversity of Pelagic Fungi by Depth and Temperature. Front Mar Sci 6: 258.

Baltar F, Gutierrez-Rodriguez A, Meyer M, Skudelny I, Sander S, Thomson B, Nodder S, Middag R and Morales SE* (2018). Specific Effect of Trace Metals on Marine Heterotrophic Microbial Activity and Diversity: Key Role of Iron and Zinc and Hydrocarbon-Degrading Bacteria. Front Microbiol 9: 799.

Gardner PP, Watson RJ, Morgan XC, Draper JL, Finn RD, Morales SE, et al. 2019. Identifying accurate metagenome and amplicon software via a meta-analysis of sequence to taxonomy benchmarking studies. PeerJ 7: e6160.

Peura S, Buck M, Aalto SL, Morales SE, Nykänen H, Eiler A. 2018. Novel Autotrophic Organisms Contribute Significantly to the Internal Carbon Cycling Potential of a Boreal Lake Jansson JK (ed). mBio 9: 284.

Kaminsky R, Morales SE*. 2018. Conditionally Rare Taxa Contribute but Do Not Account for Changes in Soil Prokaryotic Community Structure. Front Microbiol 9, 809.

Dickie IA, Boyer S, Buckley HL, Duncan RP, Gardner PP, Hogg ID, et al. 2018. Towards robust and repeatable sampling methods in eDNA-based studies. Mol Ecol Resour 18: 940–952.

Morales SE*, Meyer M, Currie K, Baltar F*. (2018). Are oceanic fronts ecotones? Seasonal changes along the subtropical front show fronts as bacterioplankton transition zones but not diversity hotspots. Environ Microbiol Rep 10: 184–189.

Morales SE*, Trouche B, Wakelin S, Banabas M and PN Nelson*. 2018. Shifts in prokaryotic communities under forest and grassland within a tropical mosaic landscape. Applied Soil Ecology 125: 156–161.

Lear G, Dickie I, Banks J, Boyer S, Buckley H, Buckley T, et al. 2018. Methods for the extraction, storage, amplification and sequencing of DNA from environmental samples. New Zealand Journal of Ecology. e-pub ahead of print, doi: 10.20417/nzjecol.42.9.

Rex D, Clough TJ, Richards KG, de Klein C, Morales SE, Samad MS, et al. 2017. Fungal and bacterial contributions to codenitrification emissions of N. Nutrient Cycling in Agroecosystems 110: 135–149.

Samad MS, Johns C, Richards KG, Lanigan GJ, de Klein CAM, Clough TJ, and SE Morales*. 2017. Response to nitrogen addition reveals metabolic and ecological strategies of soil bacteria. Mol Ecol. e-pub ahead of print, doi: 10.1111/mec.14275.

Clough TJ, Lanigan GJ, de Klein CAM, Samad MSMorales SE, Rex D, et al. 2017. Influence of soil moisture on codenitrification fluxes from a urea-affected pasture soil. Sci Rep7: 123.

Kaminsky R, Trouche B, and SE Morales*. 2017. Soil classification predicts differences in prokaryotic communities across a range of geographically distant soils once pH is accounted for. Sci Rep7: 45369.

Samad MS, Biswas A, Bakken LR, Clough T,de Klein C, Richard K, Lanigan G, and SE Morales*. 2016. Phylogenetic and functional potential links pH and N2O emissions in pasture soils. Sci. Rep. 6, 35990; doi: 10.1038/srep35990. 

Highton MP, Roosa S, Crawshaw J, Schallenberg M and SE Morales*. 2016. Physical factors correlate to microbial community structure and nitrogen cycling gene abundance in a nitrate fed eutrophic lagoon. Front. Microbiol. 7:1691.doi: 10.3389/fmicb.2016.01691 

Ney B, Ahmed FH, Carere CR, Biswas A, Warden AC, Morales SE, et al. 2016. The methanogenic redox cofactor F420 is widely synthesized by aerobic soil bacteria. The ISME Journal. e-pub ahead of print, doi: 10.1038/ismej.2016.100. 

Wolf PG, Biswas AMorales SE, Greening C, and HR Gaskins. 2016. H2 metabolism is widespread and diverse among human colonic microbes. Gut Microbes 7: 235–245. 

Biswas A, Staals RHJ, Morales SE, Fineran PC, and CM Brown. 2016. CRISPRDetect: A flexible algorithm to define CRISPR arrays. BMC Genomics 17: 2291. 

Samad MS, Bakken LR,Nadeem S,de Klein C, Richard K, Lanigan G, Clough T, and SE Morales*. 2016. High-Resolution Denitrification Kinetics in Pasture Soils Link N2O Emissions to pH, and Denitrification to C Mineralization. Plos One doi: 10.1371/journal.pone.0151713.s004. Top 10% most cited PLOS ONE papers published in 2016. 

Baltar F, Stuck E, Currie K, and SE Morales. 2015. Oceanic fronts: transition zones for bacterioplankton community composition. Environmental Microbiology Reports, DOI: 10.1111/1758-2229.12362 

Greening C, Carere CR, Rushton-Green R, Harold LK, Hards K, Taylor MC, Morales SE, Stott MB, and GM Cook. 2015. Persistence of the dominant soil phylum Acidobacteria by trace gas scavenging. Proceedings of the National Academy of Sciences of the United States of America, 112(33), pp.10497–10502. 

Greening C, Biswas A, Carere CR, Oakeshott JG, Russell RJ, Taylor MC, Stott MB, Cook GM, and SE Morales. 2015. Genomic and metagenomic surveys of hydrogenase distribution indicate H2 is a widely utilised energy source for microbial growth and survival. The ISME Journal, pp.doi:10.1038–ismej.2015.153. 

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Baltar F, Stuck E, Morales SE, and K Currie. 2015. Bacterioplankton carbon cycling along the Subtropical Frontal Zone off New Zealand. Progress in Oceanography, 135, pp.168–175.

Morales SE, Jha N, and S Saggar. 2015. Impact of urine and the application of the nitrification inhibitor DCD on microbial communities in dairy-grazed pasture soils. Soil Biology and Biochemistry, 88, pp.344–353.

Morales SE, Jha N, and S Saggar. 2015. Biogeography and biophysicochemical traits link N2O emissions, N2O emission potential and microbial communities across New Zealand pasture soils. Soil Biology and Biochemistry, 82(C), pp.87–98.

Greening C, Constant P, Hards K, Morales SE, Oakeshott JG, Russell RJ, Taylor MC, Berney M, Conrad R, and GM Cook. 2015. Atmospheric hydrogen scavenging: from enzymes to ecosystems. Appl. Env. Microbiol. 81(4): 1190-1199.

Morales SE and WE Holben. 2014. Simulated geologic carbon storage leak reduces bacterial richness and alters bacterial community composition in surface soil. Soil Biology and Biochemistry, 76, pp.286–296.

Morales SE and WE Holben. 2013. Functional response of the surface microbial community to a simulated underground CO2 storage leak. PLoS ONE. vol. 8 (11) p. e81742

Gibbons SM, Feris K, Ramsey PW, McGuirl MA, Morales SE, Hynninen A, and JE Gannon. 2011. Use of microcalorimetry to determine the costs and benefits of Pseudomonas putida strain KT2440 of harboring cadmiun efflux genes. Appl. Env. Microbiol. 77(1): 108-13.

Mouser PJ, Rizzo DM, Druschel JK, Morales SE, Hayden N, O'Grady P, and L Stevens. 2010.Enhanced detection of groundwater contamination from a leaking waste disposal site by microbial community profiles. Water Resour. Res. 46, W12506, doi:10.1029/2010WR009459.

Morales SE and WE Holben. 2010. Linking bacterial identities and ecosystem processes: Can ‘omic’ analyses be more than the sum of their parts?. FEMS Microbiol. Ecol. 75: 2-16

Morales SE, Cosart T, and WE Holben. 2010. Bacterial populations as indicators of greenhouse gas emission in soils. ISME J. 4: 799-808.

Morales SE and WE Holben. 2009. Empirical testing of 16S PCR primer pairs reveals variance in target specificity and efficacy not suggested by in silico analysis. Appl. Env. Microbiol. 75(9): 2677-2683.

Morales SE, Cosart T, Johnson J and WE Holben. 2009. Extensive phylogenetic analysis of a soil bacterial community illustrates extreme taxon evenness and the effects of amplicon length, degree of coverage, and DNA fractionation on classification and ecological parameters. Appl. Env. Microbiol.75(3):668-675.

Morales SE, Cosart T, Johnson J and WE Holben. 2008.Supplemental programs for enhanced recovery of data from the DOTUR application. J. Microb. Methods. 75(3):572-575.

Gotelli NJ, Mouser PJ, Hudman SP, Morales SE, Ross D, and AM Ellison. 2008. Geographic variation in nutrient availability, stoichiometry, and metal concentrations of plants and pore-water in ombrotrophic bogs in New England, USA. Wetlands. 28(3):827.

Morales SE and TA Lewis.2006.Transcriptional regulation of the pdt gene cluster of Pseudomonas stutzeri KC involves an AraC/XylS family transcriptional activator (PdtC) and the cognate siderophore pyridine-2,6-bis(thiocarboxylic acid). Appl. Env. Microbiol. 72: 6994-7002

Morales SE, Mouser PJ, Ward N, Hudman SP, Ross DS, Gotelli NJ and TA Lewis.2006. Comparison of bacterial composition and diversity in New England Sphagnum bogs using terminal restriction fragment length polymorphism (T-RFLP). Microb. Ecol. 52:34-44.

Lewis TA, Leach L, Morales SE, Austin PR, Hartwell HJ, Kaplan B, Forker C, and J-M Meyer. 2004.Physiological and molecular genetic evaluation of the dechlorination agent, pyridine-2,6-bis(monothiocarboxylic acid) (PDTC) as a secondary siderophore of Pseudomonas. Environ. Microbiol. 6:159-169.

Richman TJ, Toenjes KA, Morales SE, Cole KC, Wasserman BT, Taylor CM, Koster JA, Whelihan MF, and DI Johnson. 2004. Analysis of cell-cycle specific localization of the Rdi1p RhoGDI and the structural determinants required for Cdc42p membrane localization and clustering at sites of polarized growth. Curr. Genet. 45(6):339-49.