Publications

† = authors contributed equally; * = undergraduate/intern researcher

For the most up-to-date list visit Google Scholar here.

Papke E, Carreiro A, Dennison C, Deutsch J, Isma LM, Meiling SS, Rossin A, Baker AC, Brandt M, Garg N, Holstein DM, Traylor-Knowles N, Voss JD, Ushijima B. Stony Coral Tissue Loss Disease: A Review of Emergence, Impacts, Etiology, Diagnostics, and Intervention. Frontiers in Marine Science. 2024 Jan; https://doi.org/10.3389/fmars.2023.1321271.

Garcias-Bonet N, Roik A, Tierney B, García FC, Villela HDM, Dungan AM, Quigley KM, Sweet M, Berg G, Gram L, Bourne DG, Ushijima B, Sogin M, Hoj L, Duarte G, Hirt H, Smalla K, Rosado AS, Carvalho S, Vega Thurber R, Peixoto RS#. Horizon scanning the application of probiotics for wildlife. Trends in Microbiology. 2023 Sep; https://doi.org/10.1016/j.tim.2023.08.012

Evans JS, Paul VJ, Ushijima B, Pitts KA, Kellogg CA. Investigating microbial size classes associated with the transmission of stony coral tissue loss disease (SCTLD). PeerJ. 2023 Aug 23;11:e15836.

Ushijima B, Gunasekera, S., Meyer JL, Tittl J, Pitts K, Thompson S*, Sneed J, Ding Y, Chen M, Houk LJ, Aeby GS, Häse CC, Paul V. Chemical and genomic characterization of Pseudoalteromonas sp. McH1-7, a potential probiotic treatment for an ongoing coral disease outbreak in Florida. Communications Biology. 2023 April https://doi.org/10.1038/s42003-023-04590-y

Johnston MA, Studivan MS, Enochs IC, Correa AMS, Besemer N, Eckert RJ, Edwards K, Hannum R, Hu X, Nuttall M, O’Connell K, Palacio-Castro AM, Schmahl GP, Sturm AB, Ushijima B, Voss JD. Coral disease outbreak at the remote Flower Garden Banks, Gulf of Mexico. Front. Mar. Sci. 2023 Jan https://doi.org/10.3389/fmars.2023.1111749

Loughran RM*, Diefendorf CM*, Reill-VanSise1 JR*, Mitchell EA, Vining OB, Gallegos DA, Miller G, Koyack MJ, Oline DK, Rivers OS, Ushijima B, Saw JH, Gaylor MO, McPhail KL, Videau P. Streptomyces spiramenti sp. nov., isolated from a deep-sea microbial mat. Archives of Microbiology. 2022 Nov;204(12):717. https://doi.org/10.1007/s00203-022-03326-6

Shlafstein M*, Emsley SA*, Loughran RM*, O’Hanlon SM, Ushijima B, Videau P, Saw JH. Complete genome of Vibrio japonicus strain JCM 31412T and assessment of the Nereis clade of the genus Vibrio. Antonie van Leeuwenhoek. 2022 Oct;1-13. https://doi.org/10.1007/s10482-022-01784-y

Loughran RM, Emsley SA, Jefferson T, Wasson BJ, Deadmond MC, Knauss TL, Pfannmuller KM, Lippert KJ, Miller G, Cline LC, Oline DK, Koyak MJ, Grant-Beurmann S, Gaylor MO, Saw JH, Ushijima B, & Videau P. Vibrio tetraodonis subsp. pristinus subsp. nov., isolated from the coral Acropora cytherea at Palmyra Atoll, and creation and emended description of Vibrio tetraodonis subsp. tetraodonis subsp. nov. Antonie van Leeuwenhoek. 2022 Sep;115(9):1215-28.

Schul M, Mason A, Ushijima B, Sneed JM. Microbiome and Metabolome Contributions to Coral Health and Disease. The Biological Bulletin. 2022 Aug 19. https://doi.org/10.1086/720971.

Peixoto RS, Voolstra CR, Sweet M, Duarte CM, Carvalho S, Villena H, Lunshof JE, Gram L, Woodhams DC, Walter J, Roik A, Hentschel U, Vega Thurber R, Daisley B, Ushijima B, Daffonchio D, Costa R, Keller-Costa T, Bowman JS, Rosado AS, Reid G, Mason CE, Walke JB, Thomas T, Berg G. Harnessing the microbiome to prevent global biodiversity loss. Nature Microbiology. 2022 Jun 14. https://doi.org/10.1038/s41564-022-01173-1.

Ushijima B, Saw JH, Videau P, Häse CC. Comparison of Vibrio coralliilyticus virulence in Pacific oyster larvae and corals. Microbiology. 2022 Apr;168(4). doi: 10.1099/mic.0.001169

Evans JS, Paul VJ, Ushijima B, Kellogg CA. Combining tangential flow filtration and size fractionation of mesocosm water as a method for the investigation of waterborne coral diseases. Biol Methods Protoc. 2022 Feb 8;7(1):bpac007. doi: 10.1093/biomethods/bpac007

Deutsch JM, Mandelare-Ruiz P, Yang Y, Foster G, Routhu A, Houk J, De La Flor YT, Ushijima B, Meyer JL, Paul VJ, Garg N. Metabolomics Approaches to Dereplicate Natural Products from Coral-Derived Bioactive Bacteria. J Nat Prod. 2022 Mar 25;85(3):462-478. doi: 10.1021/acs.jnatprod.1c01110.

Emsley SA, Pfannmuller KM, Ushijima B, Saw JH, Gaylor MO, Videau P. Draft Genome Sequence of Aestuariibacter halophilus Type Strain JC2043. Microbiology Resource Announcements. 2021 Dec 16;10(50):e01093-21.

Emsley SA, Pfannmuller KM, Ushijima B, Saw JH, Koyack MJ, Videau P. Draft Genome Sequence of the Planctobacterium marinum Type Strain K7. Microbiology Resource Announcements. 2021 Dec 9;10(49):e01071-21.

Deutsch JM, Jaiyesimi OA, Pitts KA, Houk J, Ushijima B, Walker BK, Paul VJ, Garg N (2021) Metabolomics of Healthy and Stony Coral Tissue Loss Disease Affected Montastraea cavernosa Corals. Frontiers in Marine Science, 8:714778. https://doi.org/10.3389/fmars.2021.714778.

Aeby GS, Ushijima B, Campbell JE, Jones S, Williams GJ, Meyer JL, Häse C, Paul VJ (2019) Pathogenesis of a Tissue Loss Disease Affecting Multiple Species of Corals Along the Florida Reef Tract. Frontiers in Marine Science, 6(678)https://doi.org/10.3389/fmars.2019.00678.

Traylor-Knowles, N., Connelly, M. T., Young, B. D., Eaton, K., Muller, E. M., Paul, V. J., et al. Gene Expression Response to Stony Coral Tissue Loss Disease Transmission in M. cavernosa and O. faveolata From Florida. Front. Mar. Sci. 2021 Jun 29; 8, 681563. doi:10.3389/fmars.2021.681563.

Ushijima B, Meyer J, Thompson S*, Pitts K, Marusich MF, Tittl J, Weatherup E*, Reu J*, Wetzell1 R*, Aeby R, Häse C, Paul V. Disease diagnostics and potential co-infections by Vibrio coralliilyticus during an ongoing coral disease outbreak in Florida. Front Microbiol. 2020 Oct 26;11:569354. doi: 10.3389/fmicb.2020.569354.

Kumar RS, Galvis F, Wasson BJ, Saw JH, Oline DK, Barja JL, Ushijima B, Koyack MJ, Prado S, Videau P. Draft Genome Sequence of Vibrio ostreicida Strain PP-203, the Type Strain of a Pathogen That Infects Bivalve Larvae. Microbiol Resour Announc. 2020 Aug 27;9(35):e00913-20. doi: 10.1128/MRA.00913-20.

Loughran RM, Mitchell EA, Vining OB, Gallegos DA, Deadmond MC, Wasson BJ, Pfannmuller KM, Paddock BE, Koyack MJ, Oline DK, Ushijima B, Saw JH, McPhail KL, Videau P. Draft Genome Sequence of Streptomyces sp. Strain ventii, Isolated from a Microbial Mat near Hydrothermal Vents within the Axial Seamount in the Pacific Ocean, and Resequencing of the Type Strains Streptomyces lonarensis NCL 716 and Streptomyces bohaiensis 11A07. Microbiol Resour Announc. 2020 Aug 6;9(32):e00607-20. doi: 10.1128/MRA.00607-20.

Lydick VN, Rusch DB, Ushijima B, van Kessel JC. Complete Genome Sequence of Vibrio coralliilyticus OCN008. Microbiol Resour Announc. 2020 Jul 23;9(30):e00323-20. doi: 10.1128/MRA.00323-20.

Loughran RM, Esquivel AR, Deadmond MC, Koyack MJ, Paddock BE, O’Hanlon SM, Ushijima B, Saw JH, Videau P. Draft genome sequence of Vibrio sp. strain OCN044, isolated from Palmyra Atoll, Northern Line Islands. Microbiol. Resour. Announc. 2020 Mar 19;9(12).

Britt M, Ramsey K, Maramba J, Ushijima B, Moller E, Anishkin A, Hase C, Sukharev SI. MSCS is a critical component for osmotic survival of Vibrio Cholerae. Biophysical J. 2020 Feb 7;118(3):251a.

Guillemette R†, Ushijima B†, Jalan M*, Häse CC, Azam F. Insight into the resilience and susceptibility of marine bacteria to T6SS attack by Vibrio cholerae and Vibrio coralliilyticus. PLoS ONE. 2020 15(1): e0227864. doi.org/10.1371/journal.pone.0227864

Aeby GA, Ushijima B, Campbell JE, Jones S, Williams G, Meyer JL, Häse CC, Paul V. Pathogenesis of a tissue loss disease affecting multiple species of corals along the Florida Reef Tract. Front Mar Sci. 2019 November 10:2244. doi: 10.3389/fmicb.2019.02244

Meyer JL, Castellanos-Gell J*, Aeby GS, Häse CC, Ushijima B, Paul V. Microbial community shifts associated with the ongoing stony coral tissue loss disease outbreak on the Florida Reef Tract. Front Microbiol. 2019 May 10:2244. doi: 10.3389/fmicb.2019.02244.

Swenson VA*, Gaylor MO, Ushijima B, Philmus B, Cozy LM, Videau NM, Videau P. Assessment and verification of commercially available pressure cookers for laboratory sterilization. PLoS ONE. 2018 Dec 11;13(12):e0208769. doi: 10.1371/journal.pone.0208769.

Ushijima B & Häse CC. Influence of chemotaxis and swimming patterns on the virulence of the coral pathogen Vibrio coralliilyticus. J Bacteriol. 2018 Jul 10;200(15). pii: e00791-17. doi: 10.1128/JB.00791-17.

Beurmann S, Ushijima B, Videau P, Svoboda CM, Chatterjee A, Aeby GS, Callahan SM. Dynamics of acute Montipora white syndrome: bacterial communities of healthy and diseased M. capitata colonies during and after a disease outbreak. Microbiology. 2018 Jul 27. doi: 10.1099/mic.0.000699.

Ushijima B, Richards GP, Watson MA, Schubiger CB, Häse CC. Factors affecting infection of corals and larval oysters by Vibrio coralliilyticus. PLoS One. 2018 Jun 19;13(6):e0199475. doi: 10.1371/journal.pone.0199475.

Videau P, Rivers OS, Tom SK, Oshiro RT, Ushijima B, Swenson VA*, Philmus B, Gaylor MO, Cozy LM. The hetZ gene indirectly regulates heterocyst development at the level of pattern formation in Anabaena sp. strain PCC 7120. Mol Microbiol. 2018 Apr 20. doi: 10.1111/mmi.13974.

Beurmann S, Ushijima B, Videau P, Svoboda CM, Smith AM, Rivers OS, Aeby GS, Callahan SM. Pseudoalteromonas piratica strain OCN003 is a coral pathogen that causes a switch from chronic to acute Montipora white syndrome in Montipora capitata. PLoS One. 2017 Nov 16;12(11):e0188319. doi: 10.1371/journal.pone.0188319.

Caldwell JM, Ushijima B, Couch CS, Gates RD. Intra-colony disease progression induces fragmentation of coral fluorescent pigments. Sci Rep. 2017 Nov 6;7(1):14596. doi: 10.1038/s41598-017-15084-3.

Beurmann S, Ushijima B, Svoboda CM, Videau P, Smith AM, Donachie SP, Aeby GS, Callahan SM. Pseudoalteromonas piratica sp. nov., a budding, prosthecate bacterium from diseased Montipora capitata, and emended description of the genus Pseudoalteromonas. Int J Syst Evol Microbiol. 2017 Aug;67(8):2683-2688. doi: 10.1099/ijsem.0.001995.

Videau P, Rivers OS, Hurd K, Ushijima B, Oshiro RT*, Ende RJ*, O'Hanlon SM, Cozy LM. The heterocyst regulatory protein HetP and its homologs modulate heterocyst commitment in Anabaena sp. strain PCC 7120. Proc Natl Acad Sci USA. 2016 Nov 8;113(45):E6984-E6992. doi: 10.1073/pnas.1610533113.

Wan X, Lee AJ, Hou S, Ushijima B, Nguyen YP*, Thawley JA*, Donachie SP. Draft genome sequence of Piscirickettsia litoralis, isolated from seawater. Genome Announc. 2016 Nov 3;4(6). pii: e01252-16. doi: 10.1128/genomeA.01252-16.

Ushijima B†, Videau P†, Poscablo D*, Stengel JW*, Beurmann S, Burger AH, Aeby GS, Callahan SM. Mutation of the toxR or mshA genes from Vibrio coralliilyticus strain OCN014 reduces infection of the coral Acropora cytherea. Environ Microbiol. 2016 Nov;18(11):4055-4067. doi: 10.1111/1462-2920.13428.

Aeby GS, Callahan S, Cox EF, Runyon C, Smith A, Stanton FG, Ushijima B, Work TM. Emerging coral diseases in Kāne'ohe Bay, O'ahu, Hawai'i (USA): two major disease outbreaks of acute Montipora white syndrome. Dis Aquat Organ. 2016 May 26;119(3):189-98. doi: 10.3354/dao02996.

Videau P, Rivers OS, Ushijima B, Oshiro RT*, Kim MJ*, Philmus B, Cozy LM. Mutation of the murC and murB genes impairs heterocyst differentiation in Anabaena sp. strain PCC 7120. J Bacteriol. 2016 Mar 31;198(8):1196-206. doi: 10.1128/JB.01027-15.

Shore-Maggio A, Runyon CM, Ushijima B, Aeby GS, Callahan SM. Differences in bacterial community structure in two color morphs of the Hawaiian reef coral Montipora capitata. Appl Environ Microbiol. 2015 Oct;81(20):7312-8. doi: 10.1128/AEM.01935-15.

Aeby GS, Work TM, Runyon CM, Shore-Maggio A, Ushijima B, Videau P, Beurmann S, Callahan SM. First record of black band disease in the Hawaiian archipelago: response, outbreak status, virulence, and a method of treatment. PLoS ONE. 2015 Mar 16;10(3):e0120853. doi: 10.1371/journal.pone.0120853.

Beurmann S, Videau P, Ushijima B, Smith AM, Aeby GS, Callahan SM, Belcaid M. Complete genome sequence of Pseudoalteromonas sp. strain OCN003, isolated from Kāne'ohe Bay, Oʻahu, Hawaii. Genome Announc. 2015 Jan 15;3(1). pii: e01396-14. doi: 10.1128/genomeA.01396-14.

Videau P, Cozy LM, Young JE, Ushijima B, Oshiro RT*, Rivers OS, Burger AH, Callahan SM. The trpE gene negatively regulates differentiation of heterocysts at the level of induction in Anabaena sp. strain PCC 7120. J Bacteriol. 2015 Jan;197(2):362-70. doi: 10.1128/JB.02145-14.

Ushijima B, Videau P, Poscablo D*, Vine V*, Salcedo M*, Aeby G, Callahan SM. Complete genome sequence of Vibrio coralliilyticus strain OCN014, isolated from a diseased coral at Palmyra Atoll. Genome Announc. 2014 Dec 18;2(6). pii: e01318-14. doi: 10.1128/genomeA.01318-14.

Ushijima B, Videau P, Burger AH, Shore-Maggio A, Runyon CM, Sudek M, Aeby GS, Callahan SM. Vibrio coralliilyticus strain OCN008 is an etiological agent of acute Montipora white syndrome. Appl Environ Microbiol. 2014 Apr;80(7):2102-9. doi: 10.1128/AEM.03463-13.

Williams GJ, Price NN, Ushijima B, Aeby GS, Callahan S, Davy SK, Gove JM, Johnson MD, Knapp IS, Shore-Maggio A, Smith JE, Videau P, Work TM. Ocean warming and acidification have complex interactive effects on the dynamics of a marine fungal disease. Proc Biol Sci. 2014 Jan 22;281(1778):20133069. doi: 10.1098/rspb.2013.3069.

Videau P, Ni S*, Rivers OS, Ushijima B, Feldmann EA, Cozy LM, Kennedy MA, Callahan SM. Expanding the direct HetR regulon in Anabaena sp. strain PCC 7120. J Bacteriol. 2014 Mar;196(5):1113-21. doi: 10.1128/JB.01372-13.

Ushijima B, Videau P, Aeby GS, Callahan SM. Draft genome sequence of Vibrio coralliilyticus strain OCN008, isolated from Kane'ohe Bay, Hawai'i. Genome Announc. 2013 Oct 3;1(5). pii: e00786-13. doi: 10.1128/genomeA.00786-13.

Ushijima B, Smith A, Aeby GS, Callahan SM. Vibrio owensii induces the tissue loss disease Montipora white syndrome in the Hawaiian reef coral Montipora capitata. PLoS ONE. 2012;7(10):e46717. doi: 10.1371/journal.pone.0046717.