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Recent Microbial Biology Graduate Student Publications

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Jain I, Minakhin L, Mekler V, Sitnik V, Rubanova N, Severinov K, Semenova E. 2018. Defining the seed sequence of the Cas12b CRISPR-Cas effector complex. RNA Biol:1-10. DOI PubMed

Padhi S, Dias I, Korn VL, Bennett JW. 2018. Pseudogymnoascus destructans: Causative agent of white-nose syndrome in bats is inhibited by safe volatile organic compounds. J Fungi 4:48. DOI PubMed

Mazanko MS, Gorlov IF, Prazdnova EV, Makarenko MS, Usatov AV, Bren AB, Chistyakov VA, Tutelyan AV, Komarova ZB, Mosolova NI, Pilipenko DN, Krotova OE, Struk AN, Lin A, Chikindas ML. 2017. Bacillus probiotic supplementations improve laying performance, egg quality, hatching of laying hens, and sperm quality of roosters. Probiotics Antimicrob Proteins. DOI PubMed

Algburi A, Zhang Y, Weeks R, Comito N, Zehm S, Pinto J, Uhrich KE, Chikindas ML. 2017. Gemini cationic amphiphiles control biofilm formation by bacterial vaginosis pathogens. Antimicrob Agents Chemother 61. DOI PubMed

No DS, Algburi A, Huynh P, Moret A, Ringard M, Comito N, Drider D, Takhistov P, Chikindas ML. 2017. Antimicrobial efficacy of curcumin nanoparticles against Listeria monocytogenes is mediated by surface charge. J Food Saf. 37:5. DOI

Liu J, Lopez N, Ahn Y, Goldberg T, Bromberg Y, Kerkhof LJ, Haggblom MM. 2017. Novel reductive dehalogenases from the marine sponge associated bacterium Desulfoluna spongiiphila. Environ Microbiol Rep. DOI PubMed

Mashruwala AA, Boyd JM. 2017. Investigating the role(s) of SufT and the domain of unknown function 59 (DUF59) in the maturation of iron-sulfur proteins. Curr Genet. DOI PubMed

Mashruwala AA, Gries CM, Scherr TD, Kielian T, Boyd JM. 2017. SaeRS is responsive to cellular respiratory status and regulates fermentative biofilm formation in Staphylococcus aureus. Infect Immun. DOI PubMed

Mashruwala AA, Guchte AV, Boyd JM. 2017. Impaired respiration elicits SrrAB-dependent programmed cell lysis and biofilm formation in Staphylococcus aureus. eLife 6:e23845. DOI PubMed

Roberts CA, Al-Tameemi HM, Mashruwala AA, Rosario-Cruz Z, Chauhan U, Sause WE, Torres VJ, Belden WJ, Boyd JM. 2017. The Suf Iron-Sulfur Cluster Biosynthetic System Is Essential in Staphylococcus aureus, and Decreased Suf Function Results in Global Metabolic Defects and Reduced Survival in Human Neutrophils. Infect Immun 85:e00100-17. DOI PubMed

Tanner AW, Carabetta VJ, Martinie RJ, Mashruwala AA, Boyd JM, Krebs C, Dubnau D. 2017. The RicAFT (YmcA-YlbF-YaaT) complex carries two [4Fe-4S]2+ clusters and may respond to redox changes. Mol Microbiol 104:837-850. DOI PubMed

Mashruwala AA, Boyd JM. 2017. The Staphylococcus aureus SrrAB regulatory system modulates hydrogen peroxide resistance factors, which imparts protection to aconitase during aerobic growth. PloS one 12:e0170283. DOI PubMed

Rieder R, Wisniewski PJ, Alderman BL, Campbell SC. 2017. Microbes and mental health: a review. Brain, Behavior, and Immunity. DOI PubMed

Janabi AHD, Biddle AS, Klein DJ, McKeever KH. 2017. The effects of acute strenuous exercise on the faecal microbiota in Standardbred racehorses. Comp Exercise Physiol 13:13-24. DOI

Algburi A, Comito N, Kashtanov D, Dicks LM, Chikindas ML. 2017. Control of biofilm formation: antibiotics and beyond. Appl Environ Microbiol 83:e02508-16. DOI PubMed

Dam HT, Haggblom MM. 2017. Impact of estuarine gradients on reductive dechlorination of 1,2,3,4-tetrachlorodibenzo-p-dioxin in river sediment enrichment cultures. Chemosphere 168:1177-1185. DOI PubMed

Algburi A, Zehm S, Netrebov V, Bren AB, Chistyakov V, Chikindas ML. 2017. Subtilosin prevents biofilm formation by inhibiting bacterial quorum sensing. Probiotics Antimicrob Proteins. DOI PubMed

Kuznedelov K, Mekler V, Lemak S, Tokmina-Lukaszewska M, Datsenko KA, Jain I, Savitskaya E, Mallon J, Shmakov S, Bothner B, Bailey S, Yakunin AF, Severinov K, Semenova E. 2016. Altered stoichiometry Escherichia coli Cascade complexes with shortened CRISPR RNA spacers are capable of interference and primed adaptation. Nucleic Acids Res 44:10849-10861. DOI PubMed

Choi JK, Shah M, Yee N. 2016. Anaerosporomusa subterranea gen. nov., sp. nov., a spore-forming anaerobe belonging to the class Negativicutes isolated from saprolite. Int J Syst Evol Microbiol 66:3848-3854. DOI PubMed

Louie TS, Giovannelli D, Yee N, Narasingarao P, Starovoytov V, Goker M, Klenk HP, Lang E, Kyrpides NC, Woyke T, Bini E, Haggblom MM. 2016. High-quality draft genome sequence of Sedimenticola selenatireducens strain AK4OH1T, a gammaproteobacterium isolated from estuarine sediment. Stand Genomic Sci 11:66. DOI PubMed

Choby JE, Mike LA, Mashruwala AA, Dutter BF, Dunman PM, Sulikowski GA, Boyd JM, Skaar EP. 2016. A small-molecule inhibitor of iron-sulfur cluster assembly uncovers a link between virulence regulation and metabolism in Staphylococcus aureus. Cell Chem Biol. 17:1351-1361 DOI PubMed

Mashruwala AA, Bhatt S, Poudel S, Boyd ES, Boyd JM. 2016. The DUF59 containing protein SufT is involved in the maturation of iron-sulfur (FeS) proteins during conditions of high FeS cofactor demand in Staphylococcus aureus. PLoS Genet 12:e1006233. DOI PubMed

Mashruwala AA, Roberts CA, Bhatt S, May KL, Carroll RK, Shaw LN, Boyd JM. 2016. Staphylococcus aureus SufT: an essential iron-sulphur cluster assembly factor in cells experiencing a high-demand for lipoic acid. Mol Microbiol. DOI PubMed

Lloyd NA, Janssen SE, Reinfelder JR, Barkay T. 2016. Co-selection of mercury and multiple antibiotic resistances in bacteria exposed to mercury in the Fundulus heteroclitus gut microbiome. Curr Microbiol DOI

Janabi AHD, Biddle AS, Klein D, McKeever KH. 2016. Exercise training-induced changes in the gut microbiota of Standardbred racehorses. Comp Exercise Physiol 12:119-130. DOI

Janabi AH, Kerkhof LJ, McGuinness LR, Biddle AS, McKeever KH. 2016. Comparison of a modified phenol/chloroform and commercial-kit methods for extracting DNA from horse fecal material. J Microbiol Methods 129:14-19. DOI PubMed

Qian X, Kumaraswamy GK, Zhang S, Gates C, Ananyev GM, Bryant DA, Dismukes GC. 2016. Inactivation of nitrate reductase alters metabolic branching of carbohydrate fermentation in the cyanobacterium Synechococcus sp. strain PCC 7002. Biotechnology and Bioengineering 113:979-988. DOI PubMed

Ferrer A, Rivera J, Zapata C, Norambuena J, Sandoval A, Chavez R, Orellana O, Levican G. 2016. Cobalamin protection against oxidative stress in the acidophilic iron-oxidizing bacterium Leptospirillum group II CF-1. Front Microbiol 7:748. DOI PubMed

Zhang Y, Algburi A, Wang N, Kholodovych V, Oh DO, Chikindas M, Uhrich KE. 2016. Self-assembled cationic amphiphiles as antimicrobial peptides mimics: role of hydrophobicity, linkage type, and assembly state. Nanomedicine: Nanotechnology, Biology, and Medicine. DOI PubMed

Cooper R, Goff J, Reed B, Sekar R, DiChristina T. 2016. Breathing Iron: Molecular Mechanism of Microbial Iron Reduction by Shewanella oneidensis, p 5.2.1-1 - 5.2.1-13. In Yates M, Nakatsu C, Miller R, Pillai S (ed), Manual of Environmental Microbiology, Fourth Edition. ASM Press, Washington, DC. DOI

Foflonker F, Ananyev G, Qiu H, Morrison A, Palenik B, Dismukes GC, Bhattacharya D. 2016. The unexpected extremophile: Tolerance to fluctuating salinity in the green alga Picochlorum. Algal Res 16:465-472. DOI

AlGburi A, Volski A, Cugini C, Walsh EM, Chistyakov VA, Mazanko MS, Bren AB, Dicks LMT, Chikindas ML. 2016. Safety properties and probiotic potential of Bacillus subtilis KATMIRA1933 and Bacillus amyloliquefaciens B-1895. Adv Microbiol 6:432-452. DOI

Rosario-Cruz Z, Boyd JM. 2015. Physiological roles of bacillithiol in intracellular metal processing. Curr Genet 62:59-65. DOI PubMed

Rosario-Cruz Z, Chahal HK, Mike LA, Skaar EP, Boyd JM. 2015. Bacillithiol has a role in Fe-S cluster biogenesis in Staphylococcus aureus. Mol Microbiol 98:218-242. DOI PubMed

Mashruwala AA, Boyd JM. 2015. De novo assembly of plasmids using yeast recombinational cloning. Methods Mol Biol 1373:33-41. DOI PubMed

Foflonker F, Price DC, Qiu H, Palenik B, Wang S, Bhattacharya D. 2015. Genome of the halotolerant green alga Picochlorum sp. reveals strategies for thriving under fluctuating environmental conditions. Environ Microbiol 17:412-426. DOI PubMed

Grosche A, Sekaran H, Perez-Rodriguez I, Starovoytov V, Vetriani C. 2015. Cetia pacifica gen. nov., sp. nov., a chemolithoautotrophic, thermophilic, nitrate-ammonifying bacterium from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 65:1144-1150. DOI PubMed

Mashruwala AA, Pang YY, Rosario-Cruz Z, Chahal HK, Benson MA, Mike LA, Skaar EP, Torres VJ, Nauseef WM, Boyd JM. 2015. Nfu facilitates the maturation of iron-sulfur proteins and participates in virulence in Staphylococcus aureus. Mol Microbiol 95:383-409. DOI PubMed

Druzhinin SY, Tran NT, Skalenko KS, Goldman SR, Knoblauch JG, Dove SL, Nickels BE. 2015. A Conserved Pattern of Primer-Dependent Transcription Initiation in Escherichia coli and Vibrio cholerae Revealed by 5' RNA-seq. PLoS Genet 11:e1005348. DOI PubMed

Algburi A, Volski A, Chikindas ML. 2015. Natural antimicrobials subtilosin and lauramide arginine ethyl ester synergize with conventional antibiotics clindamycin and metronidazole against biofilms of Gardnerella vaginalis but not against biofilms of healthy vaginal lactobacilli. Pathog Dis 73:ftv018. DOI PubMed

Cavera VL, Volski A, Chikindas ML. 2015. The Natural Antimicrobial Subtilosin A Synergizes with Lauramide Arginine Ethyl Ester (LAE), epsilon-Poly-L-lysine (Polylysine), Clindamycin Phosphate and Metronidazole, Against the Vaginal Pathogen Gardnerella vaginalis. Probiotics Antimicrob Proteins 7:164-171. DOI PubMed

Chistyakov V, Melnikov V, Chikindas ML, Khutsishvili M, Chagelishvili A, Bren A, Kostina N, Cavera V, Elisashvili V. 2015. Poultry-beneficial solid-state Bacillus amyloliquefaciens B-1895 fermented soybean formulation. Biosci Microbiota Food Health 34:25-28. DOI PubMed

Tiwari SK, Sutyak Noll K, Cavera VL, Chikindas ML. 2015. Improved antimicrobial activities of synthetic-hybrid bacteriocins designed from enterocin E50-52 and pediocin PA-1. Appl Environ Microbiol 81:1661-1667. DOI PubMed

Arthur TD, Cavera VL, Chikindas ML. 2014. On bacteriocin delivery systems and potential applications. Future Microbiol 9:235-248. DOI PubMed

Hicks AL, Duffy S. 2014. Cell tropism predicts long-term nucleotide substitution rates of mammalian RNA viruses. PLoS Pathog 10:e1003838. DOI PubMed

Joska TM, Mashruwala A, Boyd JM, Belden WJ. 2014. A universal cloning method based on yeast homologous recombination that is simple, efficient, and versatile. J Microbiol Methods 100:46-51. DOI PubMed

McConnell JA, Schaffner DW. 2014. Validation of mathematical models for Salmonella growth in raw ground beef under dynamic temperature conditions representing loss of refrigeration. J Food Prot 77:1110-1115. DOI PubMed

Sundara Rajan S, Cavera VL, Zhang X, Singh Y, Chikindas ML, Sinko PJ. 2014. Polyethylene glycol-based hydrogels for controlled release of the antimicrobial subtilosin for prophylaxis of bacterial vaginosis. Antimicrob Agents Chemother 58:2747-2753. DOI PubMed

Yee N, Choi J, Porter AW, Carey S, Rauschenbach I, Harel A. 2014. Selenate reductase activity in Escherichia coli requires Isc iron-sulfur cluster biosynthesis genes. FEMS Microbiol Lett 361:138-143. DOI PubMed

Henriquez M, Vergara K, Norambuena J, Beiza A, Maza F, Ubilla P, Araya I, Chavez R, San-Martin A, Darias J, Darias MJ, Vaca I. 2014. Diversity of cultivable fungi associated with Antarctic marine sponges and screening for their antimicrobial, antitumoral and antioxidant potential. World J. Microbiol. Biotechnol. 30:65-76. DOI PubMed

Raduwan H, Isola AL, Belden WJ. 2013. Methylation of histone H3 on lysine 4 by the lysine methyltransferase SET1 protein is needed for normal clock gene expression. J Biol Chem 288:8380-8390. DOI PubMed

Kumaraswamy GK, Guerra T, Qian X, Zhang SY, Bryant DA, Dismukes GC. 2013. Reprogramming the glycolytic pathway for increased hydrogen production in cyanobacteria: metabolic engineering of NAD(+)-dependent GAPDH. Energy Environ. Sci. 6:3722-3731. DOI

Rauschenbach I, Posternak V, Cantarella P, McConnell J, Starovoytov V, Haggblom MM. 2013. Seleniivibrio woodruffii gen. nov., sp. nov., a selenate- and arsenate-respiring bacterium in the Deferribacteraceae. Int J Syst Evol Microbiol 63:3659-3665. DOI PubMed

Xu S, Cavera VL, Rogers MA, Huang Q, Zubovskiy K, Chikindas ML. 2013. Benzoyl peroxide formulated polycarbophil/carbopol 934P hydrogel with selective antimicrobial activity, potentially beneficial for treatment and prevention of bacterial vaginosis. Infect Dis Obstet Gynecol 2013:909354. DOI PubMed

Giovannelli D, Grosche A, Starovoytov V, Yakimov M, Manini E, Vetriani C. 2012. Galenea microaerophila gen. nov., sp. nov., a mesophilic, microaerophilic, chemosynthetic, thiosulfate-oxidizing bacterium isolated from a shallow-water hydrothermal vent. Int J Syst Evol Microbiol 62:3060-3066. DOI PubMed

Giovannelli D, Ricci J, Perez-Rodriguez I, Hugler M, O'Brien C, Keddis R, Grosche A, Goodwin L, Bruce D, Davenport KW, Detter C, Han J, Han S, Ivanova N, Land ML, Mikhailova N, Nolan M, Pitluck S, Tapia R, Woyke T, Vetriani C. 2012. Complete genome sequence of Thermovibrio ammonificans HB-1(T), a thermophilic, chemolithoautotrophic bacterium isolated from a deep-sea hydrothermal vent. Stand Genomic Sci 7:82-90. DOI PubMed

Hicks AL, Duffy S. 2012. One misdated sequence of rabbit hemorrhagic disease virus prevents accurate estimation of its nucleotide substitution rate. BMC Evol Biol 12:74. DOI PubMed

Perez-Rodriguez I, Grosche A, Massenburg L, Starovoytov V, Lutz RA, Vetriani C. 2012. Phorcysia thermohydrogeniphila gen. nov., sp. nov., a thermophilic, chemolithoautotrophic, nitrate-ammonifying bacterium from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 62:2388-2394. DOI PubMed

Norambuena J, Flores R, Cardenas JP, Quatrini R, Chavez R, Levican G. 2012. Thiol/Disulfide system plays a crucial role in redox protection in the acidophilic iron-oxidizing bacterium Leptospirillum ferriphilum. PloS One 7:e44576. DOI PubMed

Turovskiy Y, Cheryian T, Algburi A, Wirawan RE, Takhistov P, Sinko PJ, Chikindas ML. 2012. Susceptibility of Gardnerella vaginalis biofilms to natural antimicrobials subtilosin, epsilon-poly-L-lysine, and lauramide arginine ethyl ester. Infect Dis Obstet Gynecol 2012:284762. DOI PubMed

Ahn J, Park JW, McConnell JA, Ahn YB, Haggblom MM. 2011. Kangiella spongicola sp. nov., a halophilic marine bacterium isolated from the sponge Chondrilla nucula. Int J Syst Evol Microbiol 61:961-964. DOI PubMed

Hicks AL, Duffy S. 2011. Genus-specific substitution rate variability among picornaviruses. J Virol 85:7942-7947. DOI PubMed

Mannisto MK, Tiirola M, McConnell J, Haggblom MM. 2010. Mucilaginibacter frigoritolerans sp. nov., Mucilaginibacter lappiensis sp. nov. and Mucilaginibacter mallensis sp. nov., isolated from soil and lichen samples. Int J Syst Evol Microbiol 60:2849-2856. DOI PubMed