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  • Ian Paulsen

Elucidating whole-genome design principles using synthetic genomics: The Yeast 2.0 project

Williams, T. C., Wightman, E. L. I., Daniel, E. L., Kroukamp, H., Nevalainen, H. K. M., Paulsen, I. T. & Pretorius, I. S., 2015, Proceedings of the 6th Australasian Conference on Yeast: Products and Discovery. Grbin, P. R. & Chambers, P. (eds.). 1 p. 3-1

Research output: Chapter in Book/Report/Conference proceedingConference abstract

Environmental microbiology: methods and protocols

Paulsen, I. T. (ed.) & Holmes, A. J. (ed.), 2014, Second ed. New York: Humana Press. 242 p. (Methods in molecular biology; vol. 1096)

Research output: Book/ReportEdited Book/Anthology

Open Access
File
4 Citations (Scopus)
11 Downloads (Pure)

Fiber supplements derived from sugarcane stem, wheat dextrin and psyllium husk have different in vitro effects on the human gut microbiota

Gamage, H. K. A. H., Tetu, S. G., Chong, R. W. W., Bucio-Noble, D., Rosewarne, C. P., Kautto, L., Ball, M. S., Molloy, M. P., Packer, N. H. & Paulsen, I. T., 20 Jul 2018, In : Frontiers in Microbiology. 9, p. 1-16 16 p., 1618.

Research output: Contribution to journalArticle

Open Access
File
4 Citations (Scopus)
24 Downloads (Pure)

Fluorescence-based flow sorting in parallel with transposon insertion site sequencing identifies multidrug efflux systems in Acinetobacter baumannii

Hassan, K. A., Cain, A. K., Huang, T., Liu, Q., Elbourne, L. D. H., Boinett, C. J., Brzoska, A. J., Li, L., Ostrowski, M., Nhu, N. T. K., Nhu, T. D. H., Baker, S., Parkhill, J. & Paulsen, I. T., Sep 2016, In : mBio. 7, 5, p. 1-6 6 p., e01200-16.

Research output: Contribution to journalArticle

Open Access
File
10 Citations (Scopus)
25 Downloads (Pure)

Genes expressed by the biological control bacterium Pseudomonas protegens Pf-5 on seed surfaces under the control of the global regulators GacA and RpoS

Kidarsa, T. A., Shaffer, B. T., Goebel, N. C., Roberts, D. P., Buyer, J. S., Johnson, A., Kobayashi, D. Y., Zabriskie, T. M., Paulsen, I. & Loper, J. E., Mar 2013, In : Environmental microbiology. 15, 3, p. 716-735 20 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Genetically and phenotypically distinct Pseudomonas aeruginosa cystic fibrosis isolates share a core proteomic signature

Penesyan, A., Kumar, S. S., Kamath, K., Shathili, A. M., Venkatakrishnan, V., Krisp, C., Packer, N. H., Molloy, M. P. & Paulsen, I. T., 2 Oct 2015, In : PLoS ONE. 10, 10, p. 1-26 26 p., e0138527.

Research output: Contribution to journalArticle

Open Access
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9 Citations (Scopus)
19 Downloads (Pure)

Genetic identification of a high-affinity Ni transporter and the transcriptional response to Ni deprivation in synechococcus sp. Strain WH8102

Dupont, C. L., Johnson, D. A., Phillippy, K., Paulsen, I. T., Brahamsha, B. & Palenik, B., Nov 2012, In : Applied and Environmental Microbiology. 78, 22, p. 7822-7832 11 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Genome-based evolutionary history of Pseudomonas spp

Hesse, C., Schulz, F., Bull, C. T., Shaffer, B. T., Yan, Q., Shapiro, N., Hassan, K. A., Varghese, N., Elbourne, L. D. H., Paulsen, I. T., Kyrpides, N., Woyke, T. & Loper, J. E., Jun 2018, In : Environmental microbiology. 20, 6, p. 2142-2159 18 p.

Research output: Contribution to journalArticle

27 Citations (Scopus)

Genome of alkaliphilic Bacillus pseudofirmus OF4 reveals adaptations that support the ability to grow in an external pH range from 7.5 to 11.4

Janto, B., Ahmed, A., Ito, M., Liu, J., Hicks, D. B., Pagni, S., Fackelmayer, O. J., Smith, T. A., Earl, J., Elbourne, L. D. H., Hassan, K., Paulsen, I. T., Kolstø, A. B., Tourasse, N. J., Ehrlich, G. D., Boissy, R., Ivey, D. M., Li, G., Xue, Y., Ma, Y. & 2 others, Hu, F. Z. & Krulwich, T. A., Dec 2011, In : Environmental microbiology. 13, 12, p. 3289-3309 21 p.

Research output: Contribution to journalArticle

50 Citations (Scopus)

Genome sequence of the group III Clostridium botulinum strain Eklund-C

Hassan, K. A., Tetu, S. G., Elbourne, L. D. H., Johnson, E. A. & Paulsen, I. T., 2013, In : Genome Announcements. 1, 2, p. 1-2 2 p., e00044-13.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Genome sequence of the neurotoxigenic Clostridium butyricum strain 5521

Hassan, K. A., Elbourne, L. D. H., Tetu, S. G., Johnson, E. A. & Paulsen, I. T., 26 Jun 2014, In : Genome Announcements. 2, 3, p. 1-2 2 p., e00632-14.

Research output: Contribution to journalArticle

Open Access
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6 Citations (Scopus)

Genome sequence of Vibrio rotiferianus strain DAT722

Chowdhury, P. R., Boucher, Y., Hassan, K. A., Paulsen, I. T., Stokes, H. W. & Labbate, M., Jul 2011, In : Journal of Bacteriology. 193, 13, p. 3381-3382 2 p.

Research output: Contribution to journalComment/opinion

15 Citations (Scopus)

Genome sequences of the biotechnologically important Bacillus megaterium Strains QM B1551 and DSM319

Eppinger, M., Bunk, B., Johns, M. A., Edirisinghe, J. N., Kutumbaka, K. K., Koenig, S. S. K., Creasy, H. H., Rosovitz, M. J., Riley, D. R., Daugherty, S., Martin, M., Elbourne, L. D. H., Paulsen, I., Biedendieck, R., Braun, C., Grayburn, S., Dhingra, S., Lukyanchuk, V., Ball, B., Ul-Qamar, R. & 5 others, Seibe, J., Bremer, E., Jahn, D., Ravel, J. & Vary, P. S., Aug 2011, In : Journal of Bacteriology. 193, 16, p. 4199-4213 15 p.

Research output: Contribution to journalArticle

109 Citations (Scopus)

Genomic analyses of Clostridium perfringens isolates from five toxinotypes

Hassan, K. A., Elbourne, L. D. H., Tetu, S. G., Melville, S. B., Rood, J. I. & Paulsen, I. T., 1 May 2015, In : Research in Microbiology. 166, 4, p. 255-263 9 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Genomic Analysis Reveals Multiple [FeFe] Hydrogenases and Hydrogen Sensors Encoded by Treponemes from the H-2-Rich Termite Gut

Ballor, N. R., Paulsen, I. & Leadbetter, J. R., Feb 2012, In : Microbial Ecology. 63, 2, p. 282-294 13 p.

Research output: Contribution to journalArticle

17 Citations (Scopus)

Genomic and phenotypic insights point to diverse ecological strategies by facultative anaerobes obtained from subsurface coal seams

Vick, S. H. W., Greenfield, P., Tetu, S. G., Midgley, D. J. & Paulsen, I. T., 7 Nov 2019, In : Scientific Reports. 9, p. 1-13 13 p., 16186.

Research output: Contribution to journalArticle

Open Access
File
10 Downloads (Pure)

Genomics and the evolution of antibiotic resistance

Gillings, M. R., Paulsen, I. T. & Tetu, S. G., 1 Jan 2017, In : Annals of the New York Academy of Sciences. 1388, 1, p. 92-107 16 p.

Research output: Contribution to journalArticle

22 Citations (Scopus)

Geochemical and microbial diversity of bundera sinkhole, an anchialine system in the eastern Indian Ocean

Humphreys, W., Tetu, S., Elbourne, L., Gillings, M., Seymour, J., Mitchell, J. & Paulsen, I., Sep 2012, In : Natura Croatica. 21, Suppl.1, p. 59-63 5 p.

Research output: Contribution to journalArticle

9 Citations (Scopus)

Global gene expression profile of Acinetobacter baumannii during bacteremia

Murray, G. L., Tsyganov, K., Kostoulias, X. P., Bulach, D. M., Powell, D., Creek, D. J., Boyce, J. D., Paulsen, I. T. & Peleg, A. Y., 15 Feb 2017, In : The Journal of infectious diseases. 215, Suppl. 1, p. S52-S57 6 p.

Research output: Contribution to journalArticle

19 Citations (Scopus)

H-NS Plays a role in expression of Acinetobacter baumannii virulence features

Eijkelkamp, B. A., Stroeher, U. H., Hassan, K. A., Elbourne, L. D. H., Paulsen, I. T. & Brown, M. H., Jul 2013, In : Infection and Immunity. 81, 7, p. 2574-2583 10 p.

Research output: Contribution to journalArticle

Open Access
File
52 Citations (Scopus)
15 Downloads (Pure)

Homologs of the Acinetobacter baumannii acei transporter represent a new family of bacterial multidrug efflux systems

Hassan, K. A., Liu, Q., Henderson, P. J. F. & Paulsen, I. T., 10 Feb 2015, In : mBio. 6, 1, p. 1-5 5 p., e01982-14.

Research output: Contribution to journalArticle

Open Access
File
51 Citations (Scopus)
4 Downloads (Pure)

Identification of novel Acinetobacter baumannii host fatty acid stress adaptation strategies

Jiang, J-H., Hassan, K. A., Begg, S. L., Rupasinghe, T. W. T., Naidu, V., Pederick, V. G., Khorvash, M., Whittall, J. J., Paton, J. C., Paulsen, I. T., McDevitt, C. A., Peleg, A. Y. & Eijkelkamp, B. A., 2019, In : mBio. 10, 1, p. 1-6 6 p., e02056-18.

Research output: Contribution to journalArticle

Open Access
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3 Citations (Scopus)
13 Downloads (Pure)

Impact of DNA damaging agents on genome-wide transcriptional profiles in two marine Synechococcus species

Tetu, S. G., Johnson, D. A., Varkey, D., Phillippy, K., Stuart, R. K., Dupont, C. L., Hassan, K. A., Palenik, B. & Paulsen, I. T., 2013, In : Frontiers in Microbiology. 4, p. 1-15 15 p., 232.

Research output: Contribution to journalArticle

Open Access
File
13 Citations (Scopus)
5 Downloads (Pure)

Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic

Allen, L. Z., Allen, E. E., Badger, J. H., McCrow, J. P., Paulsen, I. T., Elbourne, L. D., Thiagarajan, M., Rusch, D. B., Nealson, K. H., Williamson, S. J., Venter, J. C. & Allen, A. E., Jul 2012, In : ISME Journal. 6, 7, p. 1403-1414 12 p.

Research output: Contribution to journalArticle

71 Citations (Scopus)

Insights from the genomes of microbes thriving in uranium-enriched sediments

Sutcliffe, B., Chariton, A. A., Harford, A. J., Hose, G. C., Stephenson, S., Greenfield, P., Midgley, D. J. & Paulsen, I. T., May 2018, In : Microbial Ecology. 75, 4, p. 970–984 15 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Insights on virulence from the complete genome of Staphylococcus capitis

Cameron, D. R., Jiang, J. H., Hassan, K. A., Elbourne, L. D. H., Tuck, K. L., Paulsen, I. T. & Peleg, A. Y., 23 Sep 2015, In : Frontiers in Microbiology. 6, p. 1-12 12 p., 980.

Research output: Contribution to journalArticle

Open Access
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25 Citations (Scopus)
16 Downloads (Pure)

Interactions of an emerging fungal pathogen Scedosporium aurantiacum with human lung epithelial cells

Kaur, J., Kautto, L., Penesyan, A., Meyer, W., Elbourne, L. D. H., Paulsen, I. T. & Nevalainen, H., 22 Mar 2019, In : Scientific Reports. 9, p. 1-10 10 p., 5035.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
4 Downloads (Pure)

Investigation of the human pathogen Acinetobacter baumannii under iron limiting conditions

Eijkelkamp, B. A., Hassan, K. A., Paulsen, I. T. & Brown, M. H., 23 Feb 2011, In : BMC Genomics. 12, p. 1-14 14 p., 126.

Research output: Contribution to journalArticle

Open Access
File
116 Citations (Scopus)
16 Downloads (Pure)

Life in the dark: Metagenomic evidence that a microbial slime community is driven by inorganic nitrogen metabolism

Tetu, S. G., Breakwell, K., Elbourne, L. D. H., Holmes, A. J., Gillings, M. R. & Paulsen, I. T., Jun 2013, In : ISME Journal. 7, 6, p. 1227-1236 10 p.

Research output: Contribution to journalArticle

29 Citations (Scopus)

Long-term irrigation affects the dynamics and activity of the wheat rhizosphere microbiome

Mavrodi, D. V., Mavrodi, O. V., Elbourne, L. D. H., Tetu, S., Bonsall, R. F., Parejko, J., Yang, M., Paulsen, I. T., Weller, D. M. & Thomashow, L. S., 21 Mar 2018, In : Frontiers in Plant Science. 9, p. 1-15 15 p., 345.

Research output: Contribution to journalArticle

Open Access
File
17 Citations (Scopus)
4 Downloads (Pure)

Maintenance of essential amino acid synthesis pathways in the Blattabacterium cuenoti symbiont of a wood-feeding cockroach

Tokuda, G., Elbourne, L. D. H., Kinjo, Y., Saitoh, S., Sabree, Z., Hojo, M., Yamada, A., Hayashi, Y., Shigenobu, S., Bandi, C., Paulsen, I. T., Watanabe, H. & Lo, N., 23 Jun 2013, In : Biology Letters. 9, 3, p. 1-4 4 p., 20121153.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Microbial communities are sensitive indicators for freshwater sediment copper contamination

Sutcliffe, B., Hose, G. C., Harford, A. J., Midgley, D. J., Greenfield, P., Paulsen, I. T. & Chariton, A. A., Apr 2019, In : Environmental Pollution. 247, p. 1028-1038 11 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Microbial slime curtain communities of the Nullarbor Caves

Tetu, S. G., Elbourne, L. D. H., Cronan, A., Holmes, A. J., Gillings, M. R. & Paulsen, I. T., 2015, Microbial life of cave systems. Summers Engel, A. (ed.). Berlin: De Gruyter, p. 125-136 12 p. (Life in extreme environments).

Research output: Chapter in Book/Report/Conference proceedingChapter

Microbial solute transporters

Hassan, K. A., Paulsen, I. T., Elbourne, L. D. H., Ren, Q., Cameron, A. D. & Henderson, P. J. F., 2014, Reference module in biomedical research. Caplan, M. J. (ed.). Amsterdam: Elsevier

Research output: Chapter in Book/Report/Conference proceedingChapter

Microbiology of the Anthropocene

Gillings, M. R. & Paulsen, I. T., Mar 2014, In : Anthropocene. 5, p. 1-8 8 p.

Research output: Contribution to journalReview article

Open Access
23 Citations (Scopus)

Microbiome of contact lens cases following corneal infiltrative events

Vijay, A. K., Tan, J., Ho, L., Penesyan, A., Paulsen, I. & Willcox, M. D. P., Jun 2015, In : Investigative Ophthalmology and Visual Science. 56, 7, p. 4066 2 p.

Research output: Contribution to journalMeeting abstract

Niche of harmful alga Aureococcus anophagefferens revealed through ecogenomics

Gobler, C. J., Berry, D. L., Dyhrman, S. T., Wilhelm, S. W., Salamov, A., Lobanov, A. V., Zhang, Y., Collier, J. L., Wurch, L. L., Kustka, A. B., Dill, B. D., Shah, M., VerBerkmoes, N. C., Kuo, A., Terry, A., Pangilinan, J., Lindquist, E. A., Lucas, S., Paulsen, I. T., Hattenrath-Lehmann, T. K. & 13 others, Talmage, S. C., Walker, E. A., Koch, F., Burson, A. M., Marcoval, M. A., Tang, Y. Z., LeCleir, G. R., Coyne, K. J., Berg, G. M., Bertrand, E. M., Saito, M. A., Gladyshev, V. N. & Grigoriev, I. V., 15 Mar 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 11, p. 4352-4357 6 p.

Research output: Contribution to journalArticle

174 Citations (Scopus)

Novel pathways revealed in P. fluorescens Q2-87 and Q8r1-96

Thomashow, L. S., Mavrodi, D. V., Hassan, K. A., Paulsen, I. T., Loper, J. E., Alfano, J. R. & Weller, D. M., Jun 2011, In : Phytopathology. 101, 6S, p. S231-S231 1 p.

Research output: Contribution to journalMeeting abstract

One-Step Protein Conjugation to Upconversion Nanoparticles

Lu, J., Chen, Y., Liu, D., Ren, W., Lu, Y., Shi, Y., Piper, J., Paulsen, I. & Jin, D., 20 Oct 2015, In : Analytical Chemistry. 87, 20, p. 10406-10413 8 p.

Research output: Contribution to journalArticle

31 Citations (Scopus)

PA506, a conjugative plasmid of the plant epiphyte Pseudomonas fluorescens A506

Stockwell, V. O., Davis, E. W., Carey, A., Shaffer, B. T., Mavrodi, D. V., Hassan, K. A., Hockett, K., Thomashow, L. S., Paulsen, I. T. & Lopera, J. E., 2013, In : Applied and Environmental Microbiology. 79, 17, p. 5272-5282 11 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Pacing across the membrane: the novel PACE family of efflux pumps is widespread in Gram-negative pathogens

Hassan, K. A., Liu, Q., Elbourne, L. D. H., Ahmad, I., Sharples, D., Naidu, V., Chan, C. L., Li, L., Harborne, S. P. D., Pokhrel, A., Postis, V. L. G., Goldman, A., Henderson, P. J. F. & Paulsen, I. T., Sep 2018, In : Research in Microbiology. 169, 7-8, p. 450-454 5 p.

Research output: Contribution to journalArticle

Open Access
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17 Citations (Scopus)
13 Downloads (Pure)

pEl1573 Carrying bla(IMP-4), from Sydney, Australia, Is Closely Related to Other IncL/M Plasmids

Partridge, S. R., Ginn, A. N., Paulsen, I. T. & Iredell, J. R., Nov 2012, In : Antimicrobial Agents and Chemotherapy. 56, 11, p. 6029-6032 4 p.

Research output: Contribution to journalArticle

46 Citations (Scopus)

Phenotypic profiling of Scedosporium aurantiacum, an opportunistic pathogen colonizing human lungs

Kaur, J., Duan, S. Y., Vaas, L. A. I., Penesyan, A., Meyer, W., Paulsen, I. T. & Nevalainen, H., 26 Mar 2015, In : PLoS ONE. 10, 3, p. 1-14 14 p., e0122354.

Research output: Contribution to journalArticle

Open Access
File
14 Citations (Scopus)
16 Downloads (Pure)

pJIE137 carrying bla CTX-M-62 is closely related to p271A carrying bla NDM-1

Partridge, S. R., Paulsen, I. T. & Iredell, J. R., Apr 2012, In : Antimicrobial Agents and Chemotherapy. 56, 4, p. 2166-2168 3 p.

Research output: Contribution to journalArticle

19 Citations (Scopus)
Open Access
File
11 Citations (Scopus)
25 Downloads (Pure)
Open Access
File
36 Downloads (Pure)

Proteomics of hosts and pathogens in cystic fibrosis

Kamath, K. S., Kumar, S. S., Kaur, J., Venkatakrishnan, V., Paulsen, I. T., Nevalainen, H. & Molloy, M. P., 1 Feb 2015, In : Proteomics - Clinical Applications. 9, 1-2, p. 134-146 13 p.

Research output: Contribution to journalReview article

10 Citations (Scopus)