Journal of Microbiology

Journal Articles

Cultivation of Diverse Novel Marine Bacteria from Deep Ocean Sediment Using Spent Culture Supernatant of Ca. Bathyarchaeia Enrichment: Sidra Erum Ishaq, Tariq Ahmad, Lewen Liang, Ruize Xie, Tiantian Yu, Yinzhao Wang, Fengping Wang; J. Microbiol. 2024;62(8):611-625. Published online July 10, 2024; DOI: https://doi.org/10.1007/s12275-024-00145-w

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Most microorganisms resist pure cultivation under conventional laboratory conditions. One of the primary issues for this un-culturability is the absence of biologically produced growth-promoting factors in traditionally defined growth media. However, whether cultivating microbes by providing spent culture supernatant of pivotal microbes in the growth medium can be an effective approach to overcome this limitation is still an under-explored area of research. Here, we used the spent culture medium (SCM) method to isolate previously uncultivated marine bacteria and compared the efficiency of this method with the traditional cultivation (TC) method. In the SCM method, Ca. Bathyarchaeia-enriched supernatant (10%) was used along with recalcitrant organic substrates such as lignin, humic acid, and organic carbon mixture. Ca. Bathyarchaeia, a ubiquitous class of archaea, have the capacity to produce metabolites, making their spent culture supernatant a key source to recover new bacterial stains. Both cultivation methods resulted in the recovery of bacterial species from the phyla Pseudomonadota, Bacteroidota, Actinomycetota, and Bacillota. However, our SCM approach also led to the recovery of species from rarely cultivated groups, such as Planctomycetota, Deinococcota, and Balneolota. In terms of the isolation of new taxa, the SCM method resulted in the cultivation of 80 potential new strains, including one at the family, 16 at the genus, and 63 at the species level, with a novelty ratio of ~ 35% (80/219). In contrast, the TC method allowed the isolation of ~ 10% (19/171) novel strains at species level only. These findings suggest that the SCM approach improved the cultivation of novel and diverse bacteria.

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Engineering the phycosphere: fundamental concepts and tools for the bottom-up design of microalgal-bacterial consortia
Austin Semple, Jagroop Pandhal
Applied Phycology.2025; 6(1): 21. CrossRef
Uncertainty Analysis of Biogas Generation and Gas Hydrate Accumulations in the Baiyun Sag, South China Sea
Pibo Su, Jinqiang Liang, Huai Cheng, Yaoyao Lv, Wei Zhang, Zuofei Zhu
Microorganisms.2024; 13(1): 5. CrossRef

Optimization of Water Absorbing Exopolysaccharide Production on Local Cheap Substrates by Bacillus Strain CMG1403 Using One Variable at a Time Approach: Muhammadi , Muhammad Afzal; J. Microbiol. 2014;52(1):44-52. Published online January 4, 2014; DOI: https://doi.org/10.1007/s12275-014-2622-6

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Abstract

Optimum culture conditions, and carbon and nitrogen sources for production of water absorbing exopolysaccharide by Bacillus strain CMG1403 on local cheap substrates were determined using one variable at a time approach. Carbon source was found to be sole substrate for EPS biosynthesis in the presence of yeast extract that supported the growth only and hence, indirectly enhanced the EPS yield. Whereas, urea only coupled with carbon source could enhance the EPS production but no effect on growth. The maximum yield of EPS was obtained when Bacillus strain CMG1403 was grown statically in neutral minimal medium with 25% volumetric aeration at 30°C for 10 days. Under these optimum conditions, a maximum yield of 2.71±0.024, 3.82±0.005, 4.33±0.021, 4.73±0.021, 4.85±0.024, and 5.52±0.016 g/L culture medium was obtained with 20 g (sugar) of sweet whey, glucose, fructose, sucrose, cane molasses and sugar beet the most efficient one respectively as carbon sources. Thus, the present study showed that under optimum culture conditions, the local cheap substrates could be superior and efficient alternatives to synthetic carbon sources providing way for an economical production of water absorbing EPS by indigenous soil bacterium Bacillus strain CMG1403.

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Importancia de las bacterias ácido lácticas como productoras de exopolisacáridos
Hillary Alexa Flores-Maciel, Itza Nallely Cordero-Soto, Raúl E. Martínez-Herrera, Luz Araceli Ochoa-Martínez, Olga Miriam Rutiaga-Quiñones
Revista Agraria.2024; 21(2): 5. CrossRef
Carbon quantum dots (CQD) fabricated from Exiguobacterium sp. VK2 exopolysaccharide (EPS) using hydrothermal reaction and its biodiesel applications
Ramaraju Kalpana, Nagamalai Sakthi Vignesh, Kandasamy Vinothini, Mariappan Rajan, Balasubramaniem Ashokkumar, Kathirvel Brindhadevi, Nguyen Thuy Lan Chi, Arivalagan Pugazhendhi, Perumal Varalakshmi
Fuel.2023; 333: 126426. CrossRef
Structural Characterization of Exopolysaccharide Produced by Leuconostoccitreum B-2 Cultured in Molasses Medium and Its Application in Set Yogurt
Lu Liang, Min Xu, Lei Pan, Zhijiang Zhou, Ye Han
Processes.2022; 10(5): 891. CrossRef
Advances and prospects of Bacillus subtilis cellular factories: From rational design to industrial applications
Yang Gu, Xianhao Xu, Yaokang Wu, Tengfei Niu, Yanfeng Liu, Jianghua Li, Guocheng Du, Long Liu
Metabolic Engineering.2018; 50: 109. CrossRef
Exopolysaccharide from Bacillus cereus VK1: Enhancement, characterization and its potential application in heavy metal removal
Ramaraju Kalpana, Maria Joseph Angelaalincy, Balaji Viswanath Kamatchirajan, Vairathevar Sivasamy Vasantha, Balasubramaniem Ashokkumar, Venkatachalam Ganesh, Perumal Varalakshmi
Colloids and Surfaces B: Biointerfaces.2018; 171: 327. CrossRef
Comparative proteomic analyses for elucidating metabolic changes during EPS production under different fermentation temperatures by Lactobacillus plantarum Q823
Esteban Vera Pingitore, Alessandro Pessione, Cecilia Fontana, Roberto Mazzoli, Enrica Pessione
International Journal of Food Microbiology.2016; 238: 96. CrossRef
Study of optimization of wastewater contaminant removal along with extracellular polymeric substances (EPS) production by a thermotolerant Bacillus sp. ISTVK1 isolated from heat shocked sewage sludge
Asmita Gupta, Indu Shekhar Thakur
Bioresource Technology.2016; 213: 21. CrossRef
Alginate Production from Alternative Carbon Sources and Use of Polymer Based Adsorbent in Heavy Metal Removal
Çiğdem Kıvılcımdan Moral, Merve Yıldız
International Journal of Polymer Science.2016; 2016: 1. CrossRef
Microbial production of scleroglucan and downstream processing
Natalia A. Castillo, Alejandra L. Valdez, Julia I. Fariña
Frontiers in Microbiology.2015;[Epub] CrossRef

Research Support, Non-U.S. Gov'ts

A Modified Immunoblot Method to Identify Substrates of Protein Kinases: Choong-Min Kang , Wan Jin Jahng , Robert N. Husson , Sang Hee Lee; J. Microbiol. 2011;49(3):499-501. Published online June 30, 2011; DOI: https://doi.org/10.1007/s12275-011-0465-y

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Abstract: While protein kinases are key components in multiple cellular processes, efficient identification of cognate in vivo substrates remains challenging. Here we describe a powerful method to screen potential substrates of protein kinases by partial transfer of proteins from a 2D-PAGE gel to a Western blot membrane. This approach allowed precise pinpointing of candidate substrate spots in the 2D gel, and identifying physiological substrates of protein kinases in Mycobacterium tuberculosis.

Intracellular Substrates of a Heme-Containing Ascorbate Oxidase in Pleurotus ostreatus: Seung-Rock Lee , Woo-Jeong Joo , Yong-Un Baek , Youn-Kyong Lee , Seong-Woon Yu , Yeon-Ran Kim , Kee-Oh Chay , Seung-Hyun Cho , Sa-Ouk Kang; J. Microbiol. 2009;47(2):178-186. Published online May 2, 2009; DOI: https://doi.org/10.1007/s12275-008-0307-8

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Abstract: A novel heme-containing ascorbate oxidase isolated from oyster mushroom, Pleurotus ostreatus, catalyzes oxidation of ascorbic acid (Kim et al., 1996). In this report, we describe the identification of intracellular substrates of the enzyme in the mushroom. Six compounds, which can serve as substrate of the heme-containing ascorbate oxidase, were identified as L-ascorbic acid, D-erythroascorbic acid, 5-O-(α-D-glucopyranosyl)-D-erythroascorbic acid, 5-O-(α-D-xylopyranosyl)-D-erythroascorbic acid, 5-methyl-5-O-(α-D-glucopyranosyl)-D-erythroascorbic acid, and 5-methyl-5-O-(α-D-xylopyranosyl)-D-erythroascorbic acid. All of the compounds were oxidized at a significant rate by the heme-containing ascorbate oxidase. Oxidation of the compounds produced equimolar amounts of hydrogen peroxide per mole of substrate.

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