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Biomarker profiles of coagulopathy and alveolar epithelial injury in acute respiratory distress syndrome with idiopathic/immune-related disease or common direct risk factors.

Koyama K, Katayama S, Tonai K, Shima J, Koinuma T, Nunomiya S.

Crit Care. 2019 Aug 19;23(1):283. doi: 10.1186/s13054-019-2559-6.


Influence of contrast media on renal function and outcomes in patients with sepsis-associated acute kidney injury: a propensity-matched cohort study.

Goto Y, Koyama K, Katayama S, Tonai K, Shima J, Koinuma T, Nunomiya S.

Crit Care. 2019 Jul 9;23(1):249. doi: 10.1186/s13054-019-2517-3.


Landscape edges shape dispersal and population structure of a migratory fish.

Kaemingk MA, Swearer SE, Bury SJ, Shima JS.

Oecologia. 2019 Jul;190(3):579-588. doi: 10.1007/s00442-019-04440-x. Epub 2019 Jun 22.


Problem-Solving Exercise for Undergraduate Students Involving the Japanese Fermented Food Natto.

Yoshiyama Y, Shima J, Fushiki T.

J Microbiol Biol Educ. 2019 Apr 26;20(1). pii: 20.1.6. doi: 10.1128/jmbe.v20i1.1614. eCollection 2019.


Moonlight enhances growth in larval fish.

Shima JS, Swearer SE.

Ecology. 2019 Jan;100(1):e02563. doi: 10.1002/ecy.2563. Epub 2018 Dec 14.


Patterns of selective predation change with ontogeny but not density in a marine fish.

Caie P, Shima JS.

Oecologia. 2019 Jan;189(1):123-132. doi: 10.1007/s00442-018-4303-3. Epub 2018 Nov 12.


Lipid production via simultaneous conversion of glucose and xylose by a novel yeast, Cystobasidium iriomotense.

Tanimura A, Sugita T, Endoh R, Ohkuma M, Kishino S, Ogawa J, Shima J, Takashima M.

PLoS One. 2018 Sep 12;13(9):e0202164. doi: 10.1371/journal.pone.0202164. eCollection 2018.


Transient hyperlactatemia during intravenous administration of glycerol: a prospective observational study.

Katayama S, Tonai K, Goto Y, Koyama K, Koinuma T, Shima J, Wada M, Nunomiya S.

J Intensive Care. 2018 Aug 28;6:55. doi: 10.1186/s40560-018-0323-7. eCollection 2018.


Body weight definitions for evaluating a urinary diagnosis of acute kidney injury in patients with sepsis.

Katayama S, Koyama K, Goto Y, Koinuma T, Tonai K, Shima J, Wada M, Nunomiya S.

BMC Nephrol. 2018 May 2;19(1):101. doi: 10.1186/s12882-018-0895-4.


Lactic Acid Bacteria Isolated from Japanese Fermented Fish (Funa-Sushi) Inhibit Mesangial Proliferative Glomerulonephritis by Alcohol Intake with Stress.

Yamada Y, Endou M, Morikawa S, Shima J, Komatshzaki N.

J Nutr Metab. 2018 Feb 11;2018:6491907. doi: 10.1155/2018/6491907. eCollection 2018.


Time course of immature platelet count and its relation to thrombocytopenia and mortality in patients with sepsis.

Koyama K, Katayama S, Muronoi T, Tonai K, Goto Y, Koinuma T, Shima J, Nunomiya S.

PLoS One. 2018 Jan 30;13(1):e0192064. doi: 10.1371/journal.pone.0192064. eCollection 2018.


Born at the right time? A conceptual framework linking reproduction, development, and settlement in reef fish.

Shima JS, Noonburg EG, Swearer SE, Alonzo SH, Osenberg CW.

Ecology. 2018 Jan;99(1):116-126. doi: 10.1002/ecy.2048. Epub 2017 Nov 20.


Markers of acute kidney injury in patients with sepsis: the role of soluble thrombomodulin.

Katayama S, Nunomiya S, Koyama K, Wada M, Koinuma T, Goto Y, Tonai K, Shima J.

Crit Care. 2017 Aug 25;21(1):229. doi: 10.1186/s13054-017-1815-x.


Metabolic engineering of oleaginous fungus Mortierella alpina for high production of oleic and linoleic acids.

Sakamoto T, Sakuradani E, Okuda T, Kikukawa H, Ando A, Kishino S, Izumi Y, Bamba T, Shima J, Ogawa J.

Bioresour Technol. 2017 Dec;245(Pt B):1610-1615. doi: 10.1016/j.biortech.2017.06.089. Epub 2017 Jun 19.


Draft Genome Sequences of the Xylose-Fermenting Yeast Scheffersomyces shehatae NBRC 1983T and a Thermotolerant Isolate of S. shehatae ATY839 (JCM 18690).

Okada N, Tanimura A, Hirakawa H, Takashima M, Ogawa J, Shima J.

Genome Announc. 2017 May 18;5(20). pii: e00347-17. doi: 10.1128/genomeA.00347-17.


Modulation of fatty acid composition and growth in Sporosarcina species in response to temperatures and exogenous branched-chain amino acids.

Tsuda K, Nagano H, Ando A, Shima J, Ogawa J.

Appl Microbiol Biotechnol. 2017 Jun;101(12):5071-5080. doi: 10.1007/s00253-017-8227-3. Epub 2017 Mar 22.


Lipid production through simultaneous utilization of glucose, xylose, and L-arabinose by Pseudozyma hubeiensis: a comparative screening study.

Tanimura A, Takashima M, Sugita T, Endoh R, Ohkuma M, Kishino S, Ogawa J, Shima J.

AMB Express. 2016 Dec;6(1):58. doi: 10.1186/s13568-016-0236-6. Epub 2016 Aug 26.


Immature platelet fraction predicts coagulopathy-related platelet consumption and mortality in patients with sepsis.

Muronoi T, Koyama K, Nunomiya S, Lefor AK, Wada M, Koinuma T, Shima J, Suzukawa M.

Thromb Res. 2016 Aug;144:169-75. doi: 10.1016/j.thromres.2016.06.002. Epub 2016 Jun 3.


Can the Abbott RealTime hepatitis C virus assay be used to predict therapeutic outcomes in hepatitis C virus-infected patients undergoing triple therapy?

Ikeda H, Okuse C, Watanabe T, Matsumoto N, Matsunaga K, Shigefuku R, Hattori N, Hiraishi T, Fukuda Y, Noguchi Y, Ishii T, Shima J, Nakahara K, Yamamoto H, Yasuda H, Yotsuyanagi H, Koike K, Itoh F, Suzuki M.

Turk J Gastroenterol. 2016 Mar;27(2):165-72. doi: 10.5152/tjg.2016.150300.


Demographic heterogeneity and the dynamics of open populations.

Noonburg EG, Chen A, Shima JS, Swearer SE.

Ecology. 2015 May;96(5):1159-65.


Direct ethanol production from starch using a natural isolate, Scheffersomyces shehatae: Toward consolidated bioprocessing.

Tanimura A, Kikukawa M, Yamaguchi S, Kishino S, Ogawa J, Shima J.

Sci Rep. 2015 Apr 22;5:9593. doi: 10.1038/srep09593.


Consequences of variable larval dispersal pathways and resulting phenotypic mixtures to the dynamics of marine metapopulations.

Shima JS, Noonburg EG, Swearer SE.

Biol Lett. 2015 Feb;11(2):20140778. doi: 10.1098/rsbl.2014.0778.


Isolation and characterization of psychrotolerant endospore-forming Sporosarcina species associated with minced fish meat (surimi).

Tsuda K, Nagano H, Ando A, Shima J, Ogawa J.

Int J Food Microbiol. 2015 Apr 16;199:15-22. doi: 10.1016/j.ijfoodmicro.2014.12.031. Epub 2015 Jan 4.


Production of cis-11-eicosenoic acid by Mortierella fungi.

Kikukawa H, Sakuradani E, Nishibaba Y, Okuda T, Ando A, Shima J, Shimizu S, Ogawa J.

J Appl Microbiol. 2015 Mar;118(3):641-7. doi: 10.1111/jam.12725. Epub 2015 Jan 26.


Identification of a gene, FMP21, whose expression levels are involved in thermotolerance in Saccharomyces cerevisiae.

Nakamura T, Yamamoto M, Saito K, Ando A, Shima J.

AMB Express. 2014 Aug 23;4:67. doi: 10.1186/s13568-014-0067-2. eCollection 2014.


Trehalose accumulation enhances tolerance of Saccharomyces cerevisiae to acetic acid.

Yoshiyama Y, Tanaka K, Yoshiyama K, Hibi M, Ogawa J, Shima J.

J Biosci Bioeng. 2015 Feb;119(2):172-5. doi: 10.1016/j.jbiosc.2014.06.021. Epub 2014 Jul 22.


Cryptococcus terricola is a promising oleaginous yeast for biodiesel production from starch through consolidated bioprocessing.

Tanimura A, Takashima M, Sugita T, Endoh R, Kikukawa M, Yamaguchi S, Sakuradani E, Ogawa J, Ohkuma M, Shima J.

Sci Rep. 2014 Apr 24;4:4776. doi: 10.1038/srep04776.


Selection and characterization of promoters based on genomic approach for the molecular breeding of oleaginous fungus Mortierella alpina 1S-4.

Okuda T, Ando A, Sakuradani E, Kikukawa H, Kamada N, Ochiai M, Shima J, Ogawa J.

Curr Genet. 2014 Aug;60(3):183-91. doi: 10.1007/s00294-014-0423-4. Epub 2014 Feb 22.


Characterization of galactose-dependent promoters from an oleaginous fungus Mortierella alpina 1S-4.

Okuda T, Ando A, Sakuradani E, Kikukawa H, Kamada N, Ochiai M, Shima J, Ogawa J.

Curr Genet. 2014 Aug;60(3):175-82. doi: 10.1007/s00294-014-0422-5. Epub 2014 Feb 19.


Comprehensive analysis of genes involved in the oxidative stress tolerance using yeast heterozygous deletion collection.

Okada N, Ogawa J, Shima J.

FEMS Yeast Res. 2014 May;14(3):425-34. doi: 10.1111/1567-1364.12136. Epub 2014 Feb 3.


An organic acid-tolerant HAA1-overexpression mutant of an industrial bioethanol strain of Saccharomyces cerevisiae and its application to the production of bioethanol from sugarcane molasses.

Inaba T, Watanabe D, Yoshiyama Y, Tanaka K, Ogawa J, Takagi H, Shimoi H, Shima J.

AMB Express. 2013 Dec 30;3(1):74. doi: 10.1186/2191-0855-3-74.


Selection of oleaginous yeasts with high lipid productivity for practical biodiesel production.

Tanimura A, Takashima M, Sugita T, Endoh R, Kikukawa M, Yamaguchi S, Sakuradani E, Ogawa J, Shima J.

Bioresour Technol. 2014 Feb;153:230-5. doi: 10.1016/j.biortech.2013.11.086. Epub 2013 Dec 8.


Polyunsaturated fatty acid saturation by gut lactic acid bacteria affecting host lipid composition.

Kishino S, Takeuchi M, Park SB, Hirata A, Kitamura N, Kunisawa J, Kiyono H, Iwamoto R, Isobe Y, Arita M, Arai H, Ueda K, Shima J, Takahashi S, Yokozeki K, Shimizu S, Ogawa J.

Proc Natl Acad Sci U S A. 2013 Oct 29;110(44):17808-13. doi: 10.1073/pnas.1312937110. Epub 2013 Oct 14.


Improvement of fermentation ability under baking-associated stress conditions by altering the POG1 gene expression in baker's yeast.

Sasano Y, Haitani Y, Hashida K, Oshiro S, Shima J, Takagi H.

Int J Food Microbiol. 2013 Aug 1;165(3):241-5. doi: 10.1016/j.ijfoodmicro.2013.05.015. Epub 2013 May 28.


Characterization of a trifunctional fatty acid desaturase from oleaginous filamentous fungus Mortierella alpina 1S-4 using a yeast expression system.

Kikukawa H, Sakuradani E, Kishino S, Park SB, Ando A, Shima J, Ochiai M, Shimizu S, Ogawa J.

J Biosci Bioeng. 2013 Dec;116(6):672-6. doi: 10.1016/j.jbiosc.2013.05.023. Epub 2013 Jun 19.


Rim15p-mediated regulation of sucrose utilization during molasses fermentation using Saccharomyces cerevisiae strain PE-2.

Inai T, Watanabe D, Zhou Y, Fukada R, Akao T, Shima J, Takagi H, Shimoi H.

J Biosci Bioeng. 2013 Nov;116(5):591-4. doi: 10.1016/j.jbiosc.2013.05.015. Epub 2013 Jun 10.


Expression of novel carotenoid biosynthesis genes from Enterococcus gilvus improves the multistress tolerance of Lactococcus lactis.

Hagi T, Kobayashi M, Kawamoto S, Shima J, Nomura M.

J Appl Microbiol. 2013 Jun;114(6):1763-71. doi: 10.1111/jam.12182. Epub 2013 Mar 25.


Complementary function of mitogen-activated protein kinase Hog1 from Trichosporonoides megachiliensis in Saccharomyces cerevisiae under hyper-osmotic stress.

Yoshida J, Kobayashi Y, Tanaka Y, Koyama Y, Ogihara J, Kato J, Shima J, Kasumi T.

J Biosci Bioeng. 2013 Feb;115(2):127-32. doi: 10.1016/j.jbiosc.2012.08.019. Epub 2012 Oct 12.


Enhancement of acetic acid tolerance in Saccharomyces cerevisiae by overexpression of the HAA1 gene, encoding a transcriptional activator.

Tanaka K, Ishii Y, Ogawa J, Shima J.

Appl Environ Microbiol. 2012 Nov;78(22):8161-3. doi: 10.1128/AEM.02356-12. Epub 2012 Sep 7.


Identification of an acetate-tolerant strain of Saccharomyces cerevisiae and characterization by gene expression analysis.

Haitani Y, Tanaka K, Yamamoto M, Nakamura T, Ando A, Ogawa J, Shima J.

J Biosci Bioeng. 2012 Dec;114(6):648-51. doi: 10.1016/j.jbiosc.2012.07.002. Epub 2012 Jul 27.


Construction of microbial platform for an energy-requiring bioprocess: practical 2'-deoxyribonucleoside production involving a C-C coupling reaction with high energy substrates.

Horinouchi N, Sakai T, Kawano T, Matsumoto S, Sasaki M, Hibi M, Shima J, Shimizu S, Ogawa J.

Microb Cell Fact. 2012 Jun 15;11:82. doi: 10.1186/1475-2859-11-82.


Enhancement of the proline and nitric oxide synthetic pathway improves fermentation ability under multiple baking-associated stress conditions in industrial baker's yeast.

Sasano Y, Haitani Y, Hashida K, Ohtsu I, Shima J, Takagi H.

Microb Cell Fact. 2012 Apr 1;11:40. doi: 10.1186/1475-2859-11-40.


Overexpression of the transcription activator Msn2 enhances the fermentation ability of industrial baker's yeast in frozen dough.

Sasano Y, Haitani Y, Hashida K, Ohtsu I, Shima J, Takagi H.

Biosci Biotechnol Biochem. 2012;76(3):624-7.


Effects of live Lactobacillus paracasei on plasma lipid concentration in rats fed an ethanol-containing diet.

Komatsuzaki N, Shima J.

Biosci Biotechnol Biochem. 2012;76(2):232-7. Epub 2012 Feb 7.


Simultaneous accumulation of proline and trehalose in industrial baker's yeast enhances fermentation ability in frozen dough.

Sasano Y, Haitani Y, Hashida K, Ohtsu I, Shima J, Takagi H.

J Biosci Bioeng. 2012 May;113(5):592-5. doi: 10.1016/j.jbiosc.2011.12.018. Epub 2012 Jan 26.


Isolation of a novel strain of Candida shehatae for ethanol production at elevated temperature.

Tanimura A, Nakamura T, Watanabe I, Ogawa J, Shima J.

Springerplus. 2012 Oct 4;1:27. doi: 10.1186/2193-1801-1-27. eCollection 2012.


A functional compound contained in sugar cane molasses enhances the fermentation ability of baker's yeast in high-sugar dough.

Tokashiki T, Yamamoto H, Watanabe H, Nakajima R, Shima J.

J Gen Appl Microbiol. 2011;57(5):303-7. No abstract available.


Proline accumulation in baker's yeast enhances high-sucrose stress tolerance and fermentation ability in sweet dough.

Sasano Y, Haitani Y, Ohtsu I, Shima J, Takagi H.

Int J Food Microbiol. 2012 Jan 3;152(1-2):40-3. doi: 10.1016/j.ijfoodmicro.2011.10.004. Epub 2011 Oct 14.


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