Publications

Manpreet K Dhami, Gardner-Gee R, Houtte JV, Villas-Boas SG and Beggs JR (2012). Species-specific chemical signatures from scale insect honeydew. Journal of Chemical Ecology 37(11): 1231-41.
http://www.springerlink.com/content/1669vrt28vmp4187/fulltext.pdf

Smith, A.J., Chudnovsky, L., Simoes-Barbosa, A., Delgadillo-correa, M.G., Jonsson, Z.O., Wohlschlegel, J.A., & Johnson, P.J. (2011). Novel core promoter elements and a cognate transcription factor in the divergent unicellular eukaryote Trichomonas vaginalis. Mol Cell Biol, 31 (7). p1444-1458, 10.1128/MCB.00745-10.

R Aggio, K Ruggiero and S G Villas-Bôas (2010). Pathway Activity Profiling (PAPi): from the metabolite profile to the metabolic pathway activity. Bioinformatics doi: 10.1093/bioinformatics/btq567, 20210.
http://tinyurl.com/22wdtv4

K F Smart, R B M Aggio, J R Van Houtte & S G Villas-Bôas (2010). Analytical platform for methbolome analysis of microbial cells using methyl chloroformate derivatization followed by gas chromatography-mass spectrometry. NATURE PROTOCOLS, 5(10), 1709-1729, 2010.
http://tinyurl.com/2cux9ok

K Nones and S G Villas-Bôas (2010). Evaluation of the Beneficial Effects of Phytonutrients by Metabolomics. Genetics, Proteomics, and Metabolomics in Nutraceuticals and Functional Foods Chapter 19, 287-296, 2010 Edited by Debasis Bagchi, Francis C. Lau and Manashi Bagchi.
http://tinyurl.com/23fhfmq

A Chomic, M N Pearson, G R G Clover, K Farreyrol, D Saul, K F Armstrong. (2010). A. generic RT-PCR assay for the detection of Luteoviridae. Plant Pathology 59, 429-442.

M R Goddard (2010). Microbial Terrorism. Australasian Science, 24-27, April 2010.
http://tinyurl.com/yehz7g2

C Delmiglio, M N Pearson, R A Lister, P L Guy. (2010). Incidence of cereal and pasture viruses in New Zealand’s native grasses.. Annals of Applied Biology 157, 25-36.

J B Shiller, B S M Lebas, M Horner, M N Pearson, G R G Clover. (2010). Sensitive detection of viruses in pollen using conventional and real-time RT-PCR.. J. Phytopathology - early view on-line.

Simoes-Barbosa A, Hirt RP, Johnson PJ. (2010). A metazoan/plant-like capping enzyme and cap modified nucleotides in the unicellular eukaryote Trichomonas vaginalis. PLoS Pathogens 6(7):e1000999.

K Farreyrol, M Grisoni, M N Pearson, A Richard, D Cohen, D Beck. (2010). Genetic diversity of Cucumber mosaic virus infecting vanilla in French Polynesia and Réunion Island.. Australasian Plant Pathology 39, 132-140.

A G Blouin, D R Greenwood, R R Chavan, M N Pearson, G R G Clover, R M MacDiarmid, D Cohen. (2010). A generic method to identify plant viruses by high resolution tandem mass spectrometry of their coat proteins.. Journal of Virological Methods 163. 49-56..

T Wei, M N Pearson, D Blohm, M Nölte, K Armstrong. (2009). Development of a short oligonucleotide microarray for the detection and identification of multiple potyviruses.. Journal of Virological Methods 162, 109-118..

S J Harper, T E Dawson and M N Pearson. (2009). Complete genome sequences of two distinct and diverse Citrus tristeza virus isolates from New Zealand.. Archives of Virology 154, 1505-1510.

G Lear, I K G Boothroyd, S J Turner, K Roberts, G D Lewis. (2009). A comparison of bacterial and benthic invertebrate community assemblages as indicators of ecological health within freshwater streams.. Freshwater Biology 54: 1532-1543..

G Lear, S J Turner and G D Lewis. (2009). Effect of light regimes on the utilisation of an exogenous carbon source by biofilm bacterial communities.. Aquatic Ecology 43: 207-220.

G Lear and G D Lewis (2009). Impact of land use on bacterial communities within stream biofilms.. Ecological Indicators 9: 848-855.

G Lear and G D Lewis (2009). Nested Automated Ribosomal Intergenic Spacer Analysis: A rapid and accurate method for comparison of bacterial community composition.. Journal of Rapid Methods and Automation in Microbiology 17: 257-270.

PEARSON M.N., COHEN D., COWELL S.J., JONES D., BLOUIN A., LEBAS B.S.M., SHILLER J.B., CLOVER G.R.G. (2009). A survey of viruses of flower bulbs in New Zealand.. Australasian Plant Pathology 38, 305-309..

RICHARD, A., FARREYROL, K., RODIER, B., LEOCE-MOUK-SAN K., WONG, M., PEARSON, M.N. & GRISONI, M. (2009). Control of virus diseases in intensively cultivated vanilla plots of French Polynesia.. Crop Protection 28 (10), 870-877.

R R Chavan, M N Pearson and D Cohen. (2009). Partial characterization of a novel Tobamovirus infecting Actinidia chinensis and A. deliciosa (Actinidiaceae) from China.. European Journal of Plant Pathology 124, 247-259.

M N Pearson, R E Beever, B Boine and K Arthur. (2009). Mycoviruses of filamentous fungi and their relevance to plant pathology.. Molecular Plant Pathology 10(1), 115-128..

G Lear, D Niyogi, J Harding, Y Dong and G D Lewis. (2009). Biofilm bacterial community structure in streams affected by acid mine drainage.. Applied and Environmental Microbiology 75 (11) 3455-3460. .

Manpreet K Dhami (2009). Review of the biology and ecology of the invasive common mynah Acridotheres tristis, and the implications for management of this species in New Zealand. Research report: Pacific Invasives Initiative.
http://www.issg.org/cii/Electronic%20references/pii/references/pii_review_of_the_biology_and_ecology_of_the_common_myna_and_some_implications_for_management.pdf

G Lear, M J Anderson, J P Smith, K Boxen, G D Lewis (2008). Spatial and temporal heterogeneity of the bacterial communities in stream epilithic biofilms.. FEMS Microbiology Ecology. 65 (3): 463-473.

A Dopheide, G Lear, R Stott, G D Lewis. (2008). Molecular characterisation of ciliate diversity in stream biofilms.. Applied and Environmental Microbiology 74(6):1740-1747 (and journal front cover).

S J Harper, T E Dawson, P A Mooney, M N Pearson. (2008). Molecular analysis of the coat protein and minor coat protein genes of New Zealand Citrus tristeza virus isolates that overcome the resistance of Poncirus trifoliata (L.) Raf.. Australasian Plant Pathology37, 379-386.

D Jones, K Farreyrol, G R G Clover, M N Pearson. (2008). Development of a generic PCR detection method for tobraviruses. Australasian Plant Pathology 37(2) 132-136.

S J Harper, K M Chooi, M N Pearson. (2008). First Report of Citrus leaf blotch virus in New Zealand.. Plant Disease 92 (10) 1470..

Wei, T.; Pearson, M.N.; Cohen, D.; Tang, J. Z.; Clover, G.R.G. (2008). First reports of Zantedeschia mosaic virus and Zantedeschia mild mosaic virus infecting Zantedeschia in New Zealand.. Plant Disease. Accepted for publication May 2008..

Manpreet K Dhami (2008). Do microbial symbionts play a role in the ecology of kanuka giant scale Coelostomidia wairoensis?. Honours Thesis. University of Auckland.

Simoes-Barbosa A, Louly C, Franco OL, Rubio MA, Alfonzo JD, Johnson PJ. (2008). The divergent eukaryote Trichomonas vaginalis has an m7G cap methyltransferase capable of a single N2 methylation. Nucleic Acid Research, 36:6848-58.

Simoes-Barbosa A, Meloni D, Konarska MM, Johnson PJ. (2008). Spliceosomal snRNAs in the unicellular eukaryote Trichomonas vaginalis are structurally conserved but lack a 5’ cap structure. RNA 14:1617-31.

Manpreet K Dhami (2008). Review of the foraging strategies and foraging distance of Solenopsis invicta Buren, Red Imported Fire Ant (RIFA). Technical report: Ministry of Agriculture and Forestry, Biosecurity New Zealand (MAFBNZ).
Article pdf

M N Pearson, R R Chavan, D Cohen. (2007). Viruses of Actinidia: Do they pose a threat to Kiwifruit production?. Acta Horticulturae753, 639-644.

S D Card, M N Pearson, G R G Clover. (2007). Plant pathogens transmitted by pollen.. Australasian Plant Pathology 36, 455-461.

M W Taylor, R W Thacker and U Hentschel. (2007). Evolutionary insights from sponges. Science 316: 1854-1855..

T Wei, M N Pearson and D Cohen. (2007). First report of Narcissus latent virus in New Zealand.. Plant Pathology 56, 720..

D Steger, P Ettinger-Epstein, S Whalan, U Hentschel, R de Nys, M Wagner and M W Taylor. (2007). Diversity and mode of transmission of ammonia-oxidizing archaea in marine sponges . Environmental Microbiology, in press..

M W Taylor, R Radax, D Steger and M Wagner. (2007). Sponge-associated microorganisms: evolution, ecology and biotechnological potential.. Microbiology and Molecular Biology Reviews 71: 295-347.

S R Longford, N Tujula, G Crocetti, A J Holmes, C Holmström, S Kjelleberg, P D Steinberg and M W Taylor. (2007). Comparisons of diversity of bacterial communities associated with three marine eukaryotes. . Aquatic Microbial Ecology 48: 217-229..

S G Villas-Bôas, U Roessner, M Hansen, J Smedsgaard and J Nielsen (Eds). (2007). Metabolome Analysis: An Introduction.. Wiley-Interscience, New Jersey, USA. 320p. Book information: (http://www.wiley.com/WileyCDA/WileyTitle/productCd-0471743445.html) .

S G Villas-Bôas, A Koulman and G A Lane. (2007). Analytical Methods from the perspective of method standardization.. In: Topics in Current genetics - Metabolomics, Jewett, M.C.; and Nielsen J. (Eds). Elsevier-Verlag, Berlin, Germany (in press) .

S G Villas-Bôas and P Bruheim. (2007). Cold glycerol-saline: the topmost quenching solution for accurate intracellular metabolite analysis of microbial cells.. Analytical Biochemistry (in press) doi:10.1016/j.a.b.2007.06.028 .

S G Villas-Bôas and P Bruheim. (2007). The potential of metabolomics tools for bioremediation studies.. OMICS: A Journal of Integrative Biology 11: 305 - 313.

S Mas, S G Villas-Bôas, M E Hansen, M Åkesson, J Nielsen. (2007). A comparison of direct infusion MS and GC-MS for metabolic footprinting of yeast mutants.. Biotechnology and Bioengineering 96: 1014 - 1022.

Carlton JM, Hirt RP, Silva JC, Delcher AL, Schatz M, Zhao Q, Wortman JR, Bidwell SL, Alsmark UC, Besteiro S, Sicheritz-Ponten T, Noel CJ, Dacks JB, Foster PG, Simillion C, Van de Peer Y, Miranda-Saavedra D, Barton GJ, Westrop GD, Müller S, Dessi D, Fiori PL, Ren Q, Paulsen I, Zhang H, Bastida-Corcuera FD, Simoes-Barbosa A, Brown MT, Hayes RD, Mukherjee M, Okumura CY, Schneider R, Smith AJ, Vanacova S, Villalvazo M, Haas BJ, Pertea M, Feldblyum TV, Utterback TR, Shu CL, Osoegawa K, de Jong PJ, Hrdy I, Horvathova L, Zubacova Z, Dolezal P, Malik SB, Logsdon JM Jr, Henze K, Gupta A, Wang CC, Dunne RL, Upcroft JA, Upcroft P, White O, Salzberg SL, Tang P, Chiu CH, Lee YS, Embley TM, Coombs GH, Mottram JC, Tachezy J, Fraser-Liggett CM, Johnson PJ. (2007). Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis. Science 315:207-12.

T Wei, M N Pearson and D Cohen. (2006). First report of Ornithogalum mosaic virus and Ornithogalum virus 2 in New Zealand.. Plant Pathology 55, 820..

M Grisoni, M Moles, K Farreyrol, L Rassaby, R Davis, M N Pearson. (2006). Identification of potyviruses infecting vanilla by direct sequencing of a short RT-PCR amplicon. Plant Pathology 55, 523-529.

T Wei, M N Pearson, J F Fletcher. (2006). Molecular identification of New Zealand garlic yellow streak virus as a strain of Leek yellow streak virus.. Australasian Plant Pathology 35, 341-346.

K Farreyrol, M N Pearson, M Grisoni, D Cohen, D Beck. ( 2006) (2006). Molecular characterization of the Vanilla mosaic virus coat protein indicates two Potyvirus species with unusual features in the N-terminal region.. Archives of Virology 151, 905-919.

M N Pearson, G R G Clover, P L Guy, J D Fletcher, R E Beever. (2006). A review of the plant virus, viroid and mollicute records for New Zealand.. Australasian Plant Pathology 35, 1-36.

C Delmiglio and M N Pearson. (2006). Effects and incidence of virus diseases in New Zealand’s only native cucurbit, Sicyos australis.. Australasian Plant Pathology 35, 29-35.

R Howitt, R E Beever, M N Pearson, R L S Forster. (2006). Genome characterization of a flexuous rod-shaped mycovirus, Botrytis virus X, reveals high amino acid identity to genes from plant ‘potex-like’ viruses.. Archives of Virology. 151, 563-579.

S G Villas-Bôas, S Noel, G Lane, G Attwood and A Cookson. (2006). Extracellular metabolomics - a metabolic footprinting approach to assess fibre degradation in complex media.. Analytical Biochemistry 349: 297 - 305.

Simoes-Barbosa A, Argañaraz ER, Barros AM, Rosa Ade C, Alves NP, Louvandini P, D'Souza-Ault MR, Nitz N, Sturm NR, Nascimento RJ, Teixeira AR. (2006). Hitchhiking Trypanosoma cruzi minicircle DNA affects gene expression in human host cells via LINE-1 retrotransposon. Mem Inst Oswaldo Cruz. 101(8):833-43.

M W Taylor, P J Schupp, R de Nys, S Kjelleberg and P D Steinberg. (2005). Biogeography of bacteria associated with the marine sponge Cymbastela concentrica.. Environmental Microbiology 7: 419-433.

M Wagner and M W Taylor. (2005). Isotopic-labelling methods for deciphering the function of uncultured micro-organisms.. In: SGM Symposium 65: Micro-organisms and earth systems - advances in geomicrobiology, pp. 1-10, eds. Gadd, G.M., Semple, K.T., and Lappin-Scott, H.M. Cambridge University Press, Cambridge..

S G Villas-Bôas, J Højer-Petersen, M Åkesson, J Smedsgaard and J Nielsen. (2005). Global metabolome analysis of yeasts: complete evaluation of sample preparation.. Yeast 22: 1155 - 1169 .

S G Villas-Bôas, S Rasmussen and G Lane. (2005). Metabolomics or metabolite profiles?. Trends in Biotechnology 23: 385 - 386.

S G Villas-Bôas, M Åkesson and J Nielsen. (2005). Biosynthesis of glyoxylate from glycine in Saccharomyces cerevisiae.. FEMS Yeast Research 5: 703 - 709.

S G Villas-Bôas, J F Moxley, M Åkesson, G Stephanopoulos and J Nielsen. (2005). High-throughput metabolic state analysis: The missing link in integrated functional genomics of yeasts.. Biochemical Journal 388: 669 - 677.

S G Villas-Bôas, S Mas, M Åkesson, J Smedsgaard and J Nielsen. (2005). Mass spectrometry in metabolome analysis.. Mass Spectrometry Reviews 24: 613 - 646.

R Devantier, B Scheithauer, S G Villas-Bôas, S Pedersen and L Olsson. (2005). Metabolite profiling for analysis of yeast stress response during very high gravity ethanol fermentations.. Biotechnology and Bioengineering 90: 705 - 714. .

G Panagiotou, P Christakopoulos, S G Villas-Bôas and L Olsson. (2005). Fermentation performance and intracellular metabolite profiling of Fusarium oxysporum cultivated on a glucose-xylose mixture.. Enzyme and Microbial Technology 36: 100 - 106. .

Carvalho SE, Freitas D, Murad AM, Franco OL, Simoes-Barbosa A. (2005). Trichomonas vaginalis: identification of a triacylglycerol acylhydrolase. Exp Parasitol 111:260-3.

Simoes-Barbosa A, Lobo TT, Xavier J, Carvalho SE, Leornadecz E. (2005). Trichomonas vaginalis: intrastrain polymorphisms within the ribosomal intergenic spacer do not correlate with clinical presentation. Exp Parasitol 110:108-13.

Lobo TT, Feijó G, Carvalho SE, Costa PL, Chagas C, Xavier J, Simoes-Barbosa A. (2003). A comparative evaluation of the Papanicolaou test for the diagnosis of trichomoniasis. Sex Transm Dis. 30:694-9.