Journal of Microbiology

Volume 60(1); January 2022

Journal Articles

Devosia rhizoryzae sp. nov., and Devosia oryziradicis sp. nov., novel plant growth promoting members of the genus Devosia, isolated from the rhizosphere of rice plants: Geeta Chhetri , Inhyup Kim , Minchung Kang , Jiyoun Kim , Yoonseop So , Taegun Seo; J. Microbiol. 2022;60(1):1-10. Published online November 26, 2021; DOI: https://doi.org/10.1007/s12275-022-1474-8

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Two novel Gram-negative, aerobic, asporogenous, motile, rodshaped, orange and white pigmented, designated as LEGU1T and G19T, were isolated from the roots of rice plants, collected from Goyang, South Korea. Phylogenetic analysis based on their 16S rRNA gene sequences revealed that they belonged to the genus Devosia and formed a different lineage and clusters with different members of the genus Devosia. These strains shared common chemotaxonomic features. In particular, they had Q-10 as the sole quinone, phosphatidylglycerol, diphosphatidylglycerol as the principal polar lipids and C16:0, C18:1 ω7c 11-methyl and summed feature 8 (comprising C18:1 ω7c/ C18:1 ω6c) as the main fatty acids. The draft genome sequences of strains LEGU1T and G19T were 3,524,978 and 3,495,520 bp in size, respectively. Their average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values were 72.8–81.9% and 18.7–25.1%, respectively, with each other and type strains of related species belonging to the genus Devosia, suggesting that these two strains represent novel species. The G + C content of strains LEGU1T and G19T were 62.1 and 63.8%, respectively. Of the two strains, only LEGU1T produced carotenoid and flexirubin-type pigment. Both strains produced siderophore and indole acetic acid (IAA) in the presence of L-tryptophan. Siderophore biosynthesis genes, auxin responsive genes and tryptophan biosynthesis genes were present in their genomes. The present study aimed to determine the detailed taxonomic positions of the strains using the modern polyphasic approach. Based on the results of polyphasic analysis, these strains are suggested to be two novel bacterial species within the genus Devosia. The proposed names are D. rhizoryzae sp. nov., and Devosia oryziradicis sp. nov., respectively. The plant growth promoting effects of these strains suggest that they can be exploited to improve rice crop productivity. The type strain of D. rhizoryzae is LEGU1T (KCTC 82712T = NBRC 114485T) and D. oryziradicis is G19T (KCTC 82688T = NBRC 114842T).

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International Journal of Biological Macromolecules.2025; 286: 138401. CrossRef
Exploring the Impact of Coconut Peat and Vermiculite on the Rhizosphere Microbiome of Pre-Basic Seed Potatoes under Soilless Cultivation Conditions
Kan Yan, Yanni Ma, Songming Bao, Wandi Li, Yunjiao Wang, Chao Sun, Xin Lu, Juan Ran
Microorganisms.2024; 12(3): 584. CrossRef
Phytoremediation with application of anaerobic fermentation residues regulate the assembly of ecological clusters within co-occurrence network in ionic rare earth tailings soil: A pot experiment
Liumeng Chen, Shasha Chen, Tao Xing, Yun Long, Zhi Wang, Xiaoying Kong, An Xu, Qiangjian Wu, Yongmin Sun
Environmental Pollution.2024; 340: 122790. CrossRef
Devosia lacusdianchii sp. nov., an attached bacterium inhibited by metabolites from its symbiotic Microcystis
Qing-Lin Deng, Yao Xiao, Ru Jia, Xin Xie, Le Wang, Xin Wang, Jian-Yuan Yang, Qi-Gen Guo, Bing-Huo Zhang
Antonie van Leeuwenhoek.2024;[Epub] CrossRef
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Weina Chang, Wenjing Chen, Yunlong Hu, Zhigang Wang
Plant and Soil.2024; 498(1-2): 279. CrossRef
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Devosia oryzisoli sp. nov., a novel moderately halotolerant bacterium isolated from the roots of rice plants and genome mining revealed the biosynthesis potential as plant growth promoter
Geeta Chhetri, Inhyup Kim, Taegun Seo
Antonie van Leeuwenhoek.2023; 116(3): 231. CrossRef
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Xiong Li, Gaojuan Zhao, Yingqi Huang, Boqun Li
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Effects of above ground pathogen infection and fungicide application on the root-associated microbiota of apple saplings
Maximilian Fernando Becker, A. Michael Klueken, Claudia Knief
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Planobacterium oryzisoli sp. nov., a novel bacterium isolated from roots of rice plant
Geeta Chhetri, Inhyup Kim, Sunho Park, Yonghee Jung, Taegun Seo
Archives of Microbiology.2023;[Epub] CrossRef
International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Rhizobia and Agrobacteria. Minutes of the closed annual meeting: videoconference on 11 October 2022 followed by online discussion until 31 December 2022
Seyed Abdollah Mousavi, J. Peter W. Young
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Cooperative Action of Fulvic Acid and Bacillus paralicheniformis Ferment in Regulating Soil Microbiota and Improving Soil Fertility and Plant Resistance to Bacterial Wilt Disease
Xiuyun Zhao, Di Zhu, Jun Tan, Rui Wang, Gaofu Qi, Olubukola Oluranti Babalola
Microbiology Spectrum.2023;[Epub] CrossRef
Paraburkholderia tagetis sp. nov., a novel species isolated from roots of Tagetes patula enhances the growth and yield of Solanum lycopersicum L. (tomato)
Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Yoonseop So, Sunho Park, Yonghee Jung, Taegun Seo
Frontiers in Microbiology.2023;[Epub] CrossRef
Insight into the plant-associated bacterial interactions: Role for plant arsenic extraction and carbon fixation
Yibo Liu, Baiyu Zhang, Ye Yao, Bo Wang, Yiqi Cao, Yanping Shen, Xiaohui Jia, Fukai Xu, Ziwei Song, Chengpeng Zhao, HongJie Gao, Ping Guo
Science of The Total Environment.2023; 894: 164960. CrossRef
Ideonella oryzae sp. nov., isolated from soil, and Spirosoma liriopis sp. nov., isolated from fruits of Liriope platyphylla
Yonghee Jung, Geeta Chhetri, Inhyup Kim, Yoonseop So, Sunho Park, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Seasonal Shifts in Bacterial Community Structures in the Lateral Root of Sugar Beet Grown in an Andosol Field in Japan
Seishi Ikeda, Kazuyuki Okazaki, Hiroyuki Takahashi, Hirohito Tsurumaru, Kiwamu Minamisawa
Microbes and Environments.2023; 38(1): n/a. CrossRef
Effects of different cultivation media on root bacterial community characteristics of greenhouse tomatoes
Xinjian Zhang, Qiang Li, Fangyuan Zhou, Susu Fan, Xiaoyan Zhao, Chi Zhang, Kun Yan, Xiaoqing Wu
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Neoroseomonas alba sp. nov., Neoroseomonas nitratireducens sp. nov., Paraoseomonas indoligenes sp. nov and Paraoseomonas baculiformis sp. nov., isolated from the rhizosphere of paddy soil
Yoonseop So, Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Sunho Park, Yonghee Jung, Taegun Seo
Antonie van Leeuwenhoek.2023; 116(10): 1009. CrossRef
Soil amendment with insect exuviae causes species-specific changes in the rhizosphere bacterial community of cabbage plants
Max Wantulla, Joop J.A. van Loon, Marcel Dicke
Applied Soil Ecology.2023; 188: 104854. CrossRef
Validation List no. 213. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Paenibacillus agilis sp. nov., Paenibacillus cremeus sp. nov. and Paenibacillus terricola sp. nov., isolated from rhizosphere soils
Jiyoun Kim, Geeta Chhetri, Inhyup Kim, Yoonseop So, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef
An Isolated Arthrobacter sp. Enhances Rice (Oryza sativa L.) Plant Growth
Geeta Chhetri, Inhyup Kim, Minchung Kang, Yoonseop So, Jiyoun Kim, Taegun Seo
Microorganisms.2022; 10(6): 1187. CrossRef
Interactions between Soil Bacterial Diversity and Plant-Parasitic Nematodes in Soybean Plants
Felipe Martins do Rêgo Barros, Alexandre Pedrinho, Lucas William Mendes, Caio César Gomes Freitas, Fernando Dini Andreote, Karyn N. Johnson
Applied and Environmental Microbiology.2022;[Epub] CrossRef
Plant growth promoting bacteria drive food security
Fatimah K. Al-Tammar, A. Y. Z. Khalifa
Brazilian Journal of Biology.2022;[Epub] CrossRef
Chryseobacterium tagetis sp. nov., a plant growth promoting bacterium with an antimicrobial activity isolated from the roots of medicinal plant (Tagetes patula)
Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Yoonseop So, Taegun Seo
The Journal of Antibiotics.2022; 75(6): 312. CrossRef
International Committee on Systematics of Prokaryotes, Subcommittee on the taxonomy of Rhizobia and Agrobacteria, minutes of the annual meeting by videoconference, 5 July 2021, followed by online discussion until 31 December 2021
Seyed Abdollah Mousavi, J. Peter W. Young
International Journal of Systematic and Evolutionary Microbiology.2022;[Epub] CrossRef
Isolation and characterization of Klebsiella oxytoca from the rhizosphere of Lotus corniculatus and its biostimulating features
A. Y. Z. Khalifa, M. F. Aldayel
Brazilian Journal of Biology.2022;[Epub] CrossRef
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Fan Zhang, Nuohan Xu, Zhenyan Zhang, Qi Zhang, Yaohui Yang, Zhitao Yu, Liwei Sun, Tao Lu, Haifeng Qian
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Constantimarinum furrinae gen. nov., sp. nov., a marine bacterium isolated from saline volcanic rock aquifer (lava seawater) at Jeju Island, Republic of Korea: Sung-Hyun Yang , Hyun-Myung Oh , Mi-Jeong Park , Dongil Jang , Kae Kyoung Kwon; J. Microbiol. 2022;60(1):11-17. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1468-6

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Abstract

A Gram-stain-negative, aerobic, rod-shaped (0.3–0.5 × 1.0– 1.9 μm), non-motile marine bacterium designated as ALE3EIT was isolated from a saline volcanic rock aquifer (lava seawater) on Jeju Island, Republic of Korea. The 16S rRNA gene sequence analysis revealed that strain ALE3EIT showed high similarity to ‘Altibacter lentus’ JLT2010T (97.2%), followed by Marixanthomonas ophiurae KMM 3046T (94.5%). Growth was observed at 10–41°C (optimum, 30°C), at pH 6.0–8.5 (optimum, pH 7.5) and at 0.5–8% (optimum, 4.0%) NaCl. The predominant cellular fatty acids were iso-C15:0 (23.5%), iso-C16:0 (10.2%), iso-C16:0 3OH (10.5%), and iso-C17:0 3OH (16.8%). The DNA G + C contents was 40.4 mol%. The major respiratory quinone was MK-6. The major polar lipids were determined to be phosphatidylethanolamine, two unidentified glycolipids, and two unidentified aminolipids. Several phenotypic characteristics such as production of acetoin, activities of arginine dihydrolase and acid phosphatase, and utilization pattern of carbon sources differentiate strain ALE3EIT from ‘A. lentus’ JLT2010T. Activities of the lipase, trypsin, α- chymotrypsin and gelatinase and utilization pattern of carbon sources differentiate strain ALE3EIT from M. ophiurae KMM 3046T. The genome of strain ALE3EIT is 3.0 Mbp long and its ANI and AAI values against ‘A. lentus’ JLT2010T were 76.58 and 72.76, respectively, however, AAI values against members in other genera were lower than 72%. The phylogenomic tree inferred by PhyloPhlAn clearly differentiated the strain ALE3EIT together with strain JLT2010T from other genera in the Falvobacteriaceae. This polyphasic taxonomic data indicates that strain ALE3EIT should be identified as a novel species in the genus ‘Altibacter’, however, the name has not been validated. Therefore, the strain is classified as a novel genus and is proposed as Constantimarinum furrinae gen. nov., sp. nov. The type strain is ALE3EIT (= KCCM 43303T = JCM 33022T).

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Comparison of the anti-inflammatory effects of carotenoids-rich product from microalgal mass-cultured between natural seawater and magma seawater
Jayeon Cheon, Eun-A Kim, Nalae Kang, Taeho Kim, Lei Wang, Soo-Jin Heo, Seon-Heui Cha
Biocatalysis and Agricultural Biotechnology.2024; 62: 103420. CrossRef
Validation List no. 212. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef

Assessment of Cre-lox and CRISPR-Cas9 as tools for recycling of multiple-integrated selection markers in Saccharomyces cerevisiae: Hye Yun Moon† , Gyu Hun Sim† , Hyeon Jin Kim , Keunpil Kim , Hyun Ah Kang; J. Microbiol. 2022;60(1):18-30. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1580-7

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Abstract

We evaluated the Cre-lox and CRISPR-Cas9 systems as markerrecycling tools in Saccharomyces cerevisiae recombinants containing multiple-integrated expression cassettes. As an initial trial, we constructed rDNA-nontranscribed spacer- or Ty4- based multiple integration vectors containing the URA3 marker flanked by the loxP sequence. Integrants harboring multiple copies of tHMG1 and NNV-CP expression cassettes were obtained and subsequently transformed with the Cre plasmid. However, the simultaneous pop-out of the expression cassettes along with the URA3 marker hampered the use of Cre-lox as a marker-recycling tool in multiple integrants. As an alternative, we constructed a set of CRISPR-Cas9-gRNA vectors containing gRNA targeted to auxotrophic marker genes. Transformation of multiple integrants of tHMG1 and NNV-CP cassettes by the Cas9-gRNA vector in the presence of the URA3 (stop) donor DNA fragments generated the Ura- transformants retaining multiple copies of the expression cassettes. CRISPR-Cas9-based inactivation led to the recycling of the other markers, HIS3, LEU2, and TRP1, without loss of expression cassettes in the recombinants containing multiple copies of tHMG1, NNV-CP, and SfBGL1 cassettes, respectively. Reuse of the same selection marker in marker-inactivated S. cerevisiae was validated by multiple integrations of the TrEGL2 cassette into the S. cerevisiae strain expressing SfBGL1. These results demonstrate that introducing stop codons into selection marker genes using the CRISPR-Cas9 system with donor DNA fragments is an efficient strategy for markerrecycling in multiple integrants. In particular, the continual reuse of auxotrophic markers would facilitate the construction of a yeast cell factory containing multiple copies of expression cassettes without antibiotic resistance genes.

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Multiple metabolic engineering of Saccharomyces cerevisiae for the production of lycopene
Jiaheng Liu, Minxia Song, Xianhao Xu, Yaokang Wu, Yanfeng Liu, Guocheng Du, Jianghua Li, Long Liu, Xueqin Lv
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Wei Zhou, Yuanyi Li, Guosong Liu, Weichuang Qin, Dongzhi Wei, Fengqing Wang, Bei Gao
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Effects of rehydration on physiological and transcriptional responses of a water-stressed rhizobium: Jie Zhu , Xin Jiang , Dawei Guan , Yaowei Kang , Li Li , Fengming Cao , Baisuo Zhao , Mingchao Ma , Ji Zhao , Jun Li; J. Microbiol. 2022;60(1):31-46. Published online November 26, 2021; DOI: https://doi.org/10.1007/s12275-022-1325-7

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Abstract

As a microsymbiont of soybean, Bradyrhizobium japonicum plays an important role in symbiotic nitrogen fixation and sustainable agriculture. However, the survival of B. japonicum cells under water-deplete (e.g., drought) and water-replete (e.g., flood) conditions is a major concern affecting their nitrogen-fixing ability by establishing the symbiotic relationship with the host. In this study, we isolated a water stress tolerant rhizobium from soybean root nodules and tested its survival under water-deplete conditions. The rhizobium was identified as Bradyrhizobium japonicum and named strain 5038. Interestingly, both plate counting and live/dead fluorescence staining assays indicate that a number of viable but non-culturable cells exist in the culture medium upon the rehydration process which could cause dilution stress. Bradyrhizobium japonicum 5038 cells increased production of exopolysaccharide (EPS) and trehalose when dehydrated, suggesting that protective responses were stimulated. As expected, cells reduced their production upon the subsequent rehydration. To examine differential gene expression of B. japonicum 5038 when exposed to water-deplete and subsequent waterreplete conditions, whole-genome transcriptional analysis was performed under 10% relative humidity (RH), and subsequent 100% RH, respectively. A total of 462 differentially expressed genes (DEGs, > 2.0-fold) were identified under the 10% RH condition, while 3,776 genes showed differential expression during the subsequent rehydration (100% RH) process. Genes involved in signal transduction, inorganic ion transport, energy production and metabolisms of carbohydrates, amino acids, and lipids were far more up-regulated than downregulated in the 10% RH condition. Notably, trehalose biosynthetic genes (otsAB, treS, and treYZ), genes ligD, oprB, and a sigma factor rpoH were significantly induced by 10% RH. Under the subsequent 100% RH condition, genes involved in transcription, translation, cell membrane regulation, replication and repair, and protein processing were highly up-regulated. Interestingly, most of 10%-RH inducible genes displayed rehydration-repressed, except three genes encoding heat shock (Hsp20) proteins. Therefore, this study provides molecular evidence for the switch of gene expression of B. japonicum cells when encountered the opposite water availability from water-deplete to water-replete conditions.

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Profound Change in Soil Microbial Assembly Process and Co-occurrence Pattern in Co-inoculation of Bradyrhizobium japonicum 5038 and Bacillus aryabhattai MB35-5 on Soybean
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Promoter exchange of the cryptic nonribosomal peptide synthetase gene for oligopeptide production in Aspergillus oryzae: Chanikul Chutrakul , Sarocha Panchanawaporn , Sukanya Jeennor , Jutamas Anantayanon , Kobkul Laoteng; J. Microbiol. 2022;60(1):47-56. Published online November 9, 2021; DOI: https://doi.org/10.1007/s12275-022-1442-3

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Oligopeptides with functional activities are of current interest in the nutraceutical and medical sectors. The development of the biosynthetic process of oligopeptides through a nonribosomal peptide synthetase (NRPS) system has become more challenging. To develop a production platform for nonribosomal peptides (NRPs), reprogramming of transcriptional regulation of the acv gene encoded ACV synthetase (ACVS) was implemented in Aspergillus oryzae using the CRISPRCas9 system. Awakening silent acv expression was successfully achieved by promoter substitution. Among the three exchanged promoters, AoPgpdA, AoPtef1, and PtPtoxA, the replacement of the native promoter with AoPgpdA led to the highest ACV production in A. oryzae. However, the ACV production of the AoPGpdA strain was also dependent on the medium composition, in which urea was the best nitrogen source, and a C:N ratio of 20:1 was optimal for tripeptide production. In addition to cell growth, magnesium ions are an essential element for ACV production and might participate in ACVS activity. It was also found that ACV was the growthassociated product of the engineered strain that might be a
result
of constitutive transcriptional control by the AoPgpdA promoter. This study offers a potential strategy for nonribosomal ACV production using the fungal system, which is applicable for redesigning bioactive oligopeptides with industrial relevance.

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Xiao Jia, Jiayi Song, Yijian Wu, Sai Feng, Zeao Sun, Yan Hu, Mengxue Yu, Rui Han, Bin Zeng
Journal of Fungi.2024; 10(5): 312. CrossRef
Transcriptome-based Mining of the Constitutive Promoters for Tuning Gene Expression in Aspergillus oryzae
Kobkul Laoteng, Jutamas Anantayanon, Chanikul Chutrakul, Sarocha Panchanawaporn, Sukanya Jeennor
Journal of Microbiology.2023; 61(2): 199. CrossRef
Efficient de novo production of bioactive cordycepin by Aspergillus oryzae using a food-grade expression platform
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Journal of Fungi.2022; 8(5): 467. CrossRef

Interaction between hypoviral-regulated fungal virulence factor laccase3 and small heat shock protein Hsp24 from the chestnut blight fungus Cryphonectria parasitica: Jeesun Chun† , Yo-Han Ko† , Dae-Hyuk Kim; J. Microbiol. 2022;60(1):57-62. Published online November 26, 2021; DOI: https://doi.org/10.1007/s12275-022-1498-0

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Laccase3 is an important virulence factor of the fungus Cryphonectria parasitica. Laccase3 gene (lac3) transcription is induced by tannic acid, a group of phenolic compounds found in chestnut trees, and its induction is regulated by the hypovirus CHV1 infection. CpHsp24, a small heat shock protein gene of C. parasitica, plays a determinative role in stress adaptation and pathogen virulence. Having uncovered in our previous study that transcriptional regulation of the CpHsp24 gene in response to tannic acid supplementation and CHV1 infection was similar to that of the lac3, and that conserved phenotypic changes of reduced virulence were observed in mutants of both genes, we inferred that both genes were implicated in a common pathway. Building on this finding, in this paper we examined whether the CpHsp24 protein (CpHSP24) was a molecular chaperone for the lac3 protein (LAC3). Our pull-down experiment indicated that the protein products of the two genes directly interacted with each other. Heterologous co-expression of CpHsp24 and lac3 genes using Saccharomyces cerevisiae resulted in more laccase activity in the cotransformant than in a parental lac3-expresssing yeast strain. These findings suggest that CpHSP24 is, in fact, a molecular chaperone for the LAC3, which is critical component of fungal pathogenesis.

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Characteristics and expression of heat shock gene Lghsp17.4 in Lenzites gibbosa, a white rot fungus of wood
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Improved tolerance of recombinant Chlamydomonas rainhardtii with putative 2-amino-3-carboxymuconate-6-semialdehyde decarboxylase from Pyropia yezoensis to nitrogen starvation: Seo-jeong Park , Joon Woo Ahn , Jong-il Choi; J. Microbiol. 2022;60(1):63-69. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1491-7

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Abstract

In a previous study, a putative 2-amino-3-carboxymuconate- 6-semialdehyde decarboxylase (ACMSD) was highly expressed in a mutant strain of Pyropia yezoensis, which exhibited an improved growth rate compared to its wild strain. To investigate the functional role of the putative ACMSD (Pyacmsd) of P. yezoensis, the putative Pyacmsd was cloned and expressed in Chlamydomonas reinhardtii. Recombinant C. reinhardtii cells with Pyacmsd (Cr_Pyacmsd) exhibited enhanced tolerance compared to control C. reinhardtii cells (Cr_control) under nitrogen starvation. Notably, Cr_Pyacmsd cells showed accumulation of lipids in nitrogen-enriched conditions. These
results
demonstrate the role of Pyacmsd in the generation of acetyl-coenzyme A. Thus, it can be used to enhance the production of biofuel using microalgae such as C. reinhardtii and increase the tolerance of other biological systems to nitrogendeficient conditions.

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Characteristics of Recombinant Chlamydomonas reinhardtii Expressing Putative Germin-Like Protein from Neopyropia yezoensis
Jiae Kim, Jong-il Choi
Journal of Microbiology and Biotechnology.2024; 34(10): 2132. CrossRef
Overexpression of putative glutathione peroxidase from Neopyropia-associated microorganisms in Chlamydomonas to respond to abiotic stress
Jeong Hyeon Kim, Eun-Jeong Park, Jong-il Choi
Archives of Microbiology.2023;[Epub] CrossRef
Overexpression of S-Adenosylmethionine Synthetase in Recombinant Chlamydomonas for Enhanced Lipid Production
Jeong Hyeon Kim, Joon Woo Ahn, Eun-Jeong Park, Jong-il Choi
Journal of Microbiology and Biotechnology.2023; 33(3): 310. CrossRef

Direct current exerts electricidal and bioelectric effects on Porphyromonas gingivalis biofilms partially via promoting oxidative stress and antibiotic transport: Peihui Zou , Peng Li , Jia Liu , Pei Cao , Qingxian Luan; J. Microbiol. 2022;60(1):70-78. Published online November 26, 2021; DOI: https://doi.org/10.1007/s12275-022-1238-5

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Abstract

Low electric current can inhibit certain microbial biofilms and enhance the efficacy of antimicrobials against them. This study investigated the electricidal and bioelectric effects of direct current (DC) against Porphyromonas gingivalis biofilms as well as the underlying mechanisms. Here, we firstly showed that DC significantly suppressed biofilm formation of P. gingivalis in time- and intensity-dependent manners, and markedly inhibited preformed P. gingivalis biofilms. Moreover, DC enhanced the killing efficacy of metronidazole (MTZ) and amoxicillin with clavulanate potassium (AMC) against the biofilms. Notably, DC-treated biofilms displayed upregulated intracellular ROS and expression of ROS related genes (sod, feoB, and oxyR) as well as porin gene. Interestingly, DC-induced killing of biofilms was partially reversed by ROS scavenger N-dimethylthiourea (DMTU), and the synergistic effect of DC with MTZ/AMC was weakened by small interfering RNA of porin gene (si-Porin). In conclusion, DC can exert electricidal and bioelectric effects against P. gingivalis biofilms partially via promotion of oxidative stress and antibiotic transport, which offers a promising approach for effective management of periodontitis.

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Antifungal Activity, Synergism with Fluconazole or Amphotericin B and Potential Mechanism of Direct Current against Candida albicans Biofilms and Persisters
Peihui Zou, Jia Liu, Peng Li, Qingxian Luan
Antibiotics.2024; 13(6): 521. CrossRef
Smart dental materials for antimicrobial applications
Carolina Montoya, Lina Roldan, Michelle Yu, Sara Valliani, Christina Ta, Maobin Yang, Santiago Orrego
Bioactive Materials.2023; 24: 1. CrossRef
Molecular Study of Porphyromonas Gingivalis Strains With fimA Genotypes in Periodontitis Patients
Zhraa F. Faruq, Sami Khalaf Jabar
Iranian Journal of Medical Microbiology.2023; 17(6): 663. CrossRef
Drug delivery approaches for enhanced antibiofilm therapy
Tao Wang, Erik Jan Cornel, Chang Li, Jianzhong Du
Journal of Controlled Release.2023; 353: 350. CrossRef
Weak direct current exerts synergistic effect with antibiotics and reduces the antibiotic resistance: An in vitro subgingival plaque biofilm model
Peihui Zou, Yanfeng Wang, Pei Cao, Peng Li, Jia Liu, Qingxian Luan
Journal of Periodontal Research.2023; 58(1): 143. CrossRef
Bioelectric device for effective biofilm inflammation management of dental implants
Jihyun Lee, Young Wook Kim
Scientific Reports.2023;[Epub] CrossRef
A Highly Efficacious Electrical Biofilm Treatment System for Combating Chronic Wound Bacterial Infections
Fan Zhao, Yajuan Su, Junying Wang, Svetlana Romanova, Dominick J. DiMaio, Jingwei Xie, Siwei Zhao
Advanced Materials.2023;[Epub] CrossRef

Gene deletion and constitutive expression of the pectate lyase gene 1 (MoPL1) lead to diminished virulence of Magnaporthe oryzae: Alex Wegner , Florencia Casanova , Marco Loehrer , Angelina Jordine , Stefan Bohnert , Xinyu Liu , Zhengguang Zhang , Ulrich Schaffrath; J. Microbiol. 2022;60(1):79-88. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1074-7

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Abstract

Phytopathogenic fungi are known to secrete specific proteins which act as virulence factors and promote host colonization. Some of them are enzymes with plant cell wall degradation capability, like pectate lyases (Pls). In this work, we examined the involvement of Pls in the infection process of Magnaporthe oryzae, the causal agent of rice blast disease. From three Plgenes annotated in the M. oryzae genome, only transcripts of MoPL1 considerably accumulated during the infection process with a peak at 72 h post inoculation. Both, gene deletion and a constitutive expression of MoPL1 in M. oryzae led to a significant reduction in virulence. By contrast, mutants that constitutively expressed an enzymatic inactive version of MoPl1 did not differ in virulence compared to the wild type isolate. This indicates that the enzymatic activity of MoPl1 is responsible for diminished virulence, which is presumably due to degradation products recognized as danger associated molecular patterns (DAMPs), which strengthen the plant immune response. Microscopic analysis of infection sites pointed to an increased plant defense response. Additionally, MoPl1 tagged with mRFP, and not the enzymatic inactive version, focally accumulated in attacked plant cells beneath appressoria and at sites where fungal hyphae transverse from one to another cell. These findings shed new light on the role of pectate lyases during tissue colonization in the necrotrophic stage of M. oryzae's life cycle.

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Enhanced Resistance to Pokkah Boeng Disease in Sugarcane Through Host‐Induced Gene Silencing Targeting FsCYP51 in Fusarium sacchari
Liuyu Yin, Zhen Huang, Yuming Zhou, Minyan Lu, Lixiang Zhu, Ruolin Di, Zhenzhen Duan, Yixue Bao, Qin Hu, Charles A. Powell, Baoshan Chen, Jisen Zhang, Muqing Zhang, Wei Yao
Plant, Cell & Environment.2025;[Epub] CrossRef
Fusarium sacchari FsNis1 induces plant immunity
Ruolin Di, Lixiang Zhu, Zhen Huang, Minyan Lu, Liuyu Yin, Caixia Wang, Yixue Bao, Zhenzhen Duan, Charles A. Powell, Qin Hu, Jisen Zhang, Muqing Zhang, Wei Yao
Gene.2024; 907: 148260. CrossRef
Litchi aspartic protease LcAP1 enhances plant resistance via suppressing cell death triggered by the pectate lyase PlPeL8 from Peronophythora litchii
Wen Li, Peng Li, Yizhen Deng, Zijing Zhang, Junjian Situ, Ji Huang, Minhui Li, Pinggen Xi, Zide Jiang, Guanghui Kong
New Phytologist.2024; 242(6): 2682. CrossRef
Unravelling transcriptional responses of the willow to Fusarium kuroshium infection
Enrique Ibarra-Laclette, Luis A. Martínez-Rodríguez, Eric E. Hernández-Domínguez, Mizraim Olivares-Miranda, Benjamín Rodríguez-Haas, Emanuel Villafán, Claudia-Anahí Pérez-Torres, Diana Sánchez-Rangel
Physiological and Molecular Plant Pathology.2024; 133: 102379. CrossRef
Recognition of the inducible, secretory small protein OsSSP1 by the membrane receptor OsSSR1 and the co-receptor OsBAK1 confers rice resistance to the blast fungus
Tianfeng Zhao, Shijie Ma, Ziying Kong, Haimiao Zhang, Yi Wang, Junzhe Wang, Jiazong Liu, Wanzhen Feng, Tong Liu, Chunyan Liu, Suochen Liang, Shilin Lu, Xinyu Li, Haipeng Zhao, Chongchong Lu, Muhammad Zunair Latif, Ziyi Yin, Yang Li, Xinhua Ding
Molecular Plant.2024; 17(5): 807. CrossRef
A plant cell death-inducing protein from litchi interacts with Peronophythora litchii pectate lyase and enhances plant resistance
Wen Li, Peng Li, Yizhen Deng, Junjian Situ, Zhuoyuan He, Wenzhe Zhou, Minhui Li, Pinggen Xi, Xiangxiu Liang, Guanghui Kong, Zide Jiang
Nature Communications.2024;[Epub] CrossRef
Roles of Three FgPel Genes in the Development and Pathogenicity Regulation of Fusarium graminearum
Lu Cai, Xiao Xu, Ye Dong, Yingying Jin, Younes M. Rashad, Dongfang Ma, Aiguo Gu
Journal of Fungi.2024; 10(10): 666. CrossRef
Pectate Lyase from Fusarium sacchari Induces Plant Immune Responses and Contributes to Virulence
Caixia Wang, Zhen Huang, Zhenzhen Duan, Lixiang Zhu, Ruolin Di, Yixue Bao, Charles A. Powell, Qin Hu, Baoshan Chen, Muqing Zhang, Wei Yao, Lindsey Price Burbank
Microbiology Spectrum.2023;[Epub] CrossRef
Pectate Lyase Genes Abundantly Expressed During the Infection Regulate Morphological Development of Colletotrichum camelliae and CcPEL16 Is Required for Full Virulence to Tea Plants
Hong Jiang, Qinghai Cao, Xinchao Wang, Wuyun Lv, Yuchun Wang, Aaron P. Mitchell
mSphere.2023;[Epub] CrossRef
Small GTPases RasA and RasB regulate development, patulin production, and virulence of Penicillium expansum
Yuanyuan Zong, Xuemei Zhang, Di Gong, Feng Zhang, Lirong Yu, Yang Bi, Edward Sionov, Dov Prusky
Postharvest Biology and Technology.2023; 197: 112192. CrossRef
Whole-genome sequencing and comparative genomics reveal the potential pathogenic mechanism of Neoscytalidium dimidiatum on pitaya
Meng Wang, Min Xu, Zhouwen Wang, Yi Ding, Shaoling Kang, Senrong Jiang, Shuangshuang Wei, Jun Xie, Jiaquan Huang, Dongdong Li, Wenbin Hu, Hongli Li, Xingyu Jiang, Hua Tang, Yonglin Wang
Microbiology Spectrum.2023;[Epub] CrossRef
Identification of RT-qPCR reference genes suitable for gene function studies in the pitaya canker disease pathogen Neoscytalidium dimidiatum
Meng Wang, Zhouwen Wang, Shuangshuang Wei, Jun Xie, Jiaquan Huang, Dongdong Li, Wenbin Hu, Hongli Li, Hua Tang
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Potent antibacterial and antibiofilm activities of TICbf-14, a peptide with increased stability against trypsin: Liping Wang , Xiaoyun Liu , Xinyue Ye , Chenyu Zhou , Wenxuan Zhao , Changlin Zhou , Lingman Ma; J. Microbiol. 2022;60(1):89-99. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1368-9

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Abstract

The poor stability of peptides against trypsin largely limits their development as potential antibacterial agents. Here, to obtain a peptide with increased trypsin stability and potent antibacterial activity, TICbf-14 derived from the cationic peptide Cbf-14 was designed by the addition of disulfide-bridged hendecapeptide (CWTKSIPPKPC) loop. Subsequently, the trypsin stability and antimicrobial and antibiofilm activities of this peptide were evaluated. The possible mechanisms underlying its mode of action were also clarified. The results showed that TICbf-14 exhibited elevated trypsin inhibitory activity and effectively mitigated lung histopathological damage in bacteria-infected mice by reducing the bacterial counts, further inhibiting the systemic dissemination of bacteria and host inflammation. Additionally, TICbf-14 significantly repressed bacterial swimming motility and notably inhibited biofilm formation. Considering the mode of action, we observed that TICbf-14 exhibited a potent membrane-disruptive mechanism, which was attributable to its destructive effect on ionic bridges between divalent cations and LPS of the bacterial membrane. Overall, TICbf-14, a bifunctional peptide with both antimicrobial and trypsin inhibitory activity, is highly likely to become an ideal candidate for drug development against bacteria.

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Modified polymeric biomaterials with antimicrobial and immunomodulating properties
Katarzyna Szałapata, Mateusz Pięt, Martyna Kasela, Marcin Grąz, Justyna Kapral-Piotrowska, Aleksandra Mordzińska-Rak, Elżbieta Samorek, Paulina Pieniądz, Jolanta Polak, Monika Osińska-Jaroszuk, Roman Paduch, Bożena Pawlikowska-Pawlęga, Anna Malm, Anna Jar
Scientific Reports.2024;[Epub] CrossRef
Epinecidin-1, a marine antifungal peptide, inhibits Botrytis cinerea and delays gray mold in postharvest peaches
Li Fan, Yingying Wei, Yi Chen, Shu Jiang, Feng Xu, Chundan Zhang, Hongfei Wang, Xingfeng Shao
Food Chemistry.2023; 403: 134419. CrossRef

Lactobacillus plantarum-derived metabolites sensitize the tumorsuppressive effects of butyrate by regulating the functional expression of SMCT1 in 5-FU-resistant colorectal cancer cells: Hye-Ju Kim , JaeJin An , Eun-Mi Ha; J. Microbiol. 2022;60(1):100-117. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1533-1

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Abstract

A critical obstacle to the successful treatment of colorectal cancer (CRC) is chemoresistance. Chemoresistant CRC cells contribute to treatment failure by providing a mechanism of drug lethargy and modifying chemoresistance-associated molecules. The gut microbiota provide prophylactic and therapeutic effects by targeting CRC through anticancer mechanisms. Among them, Lactobacillus plantarum contributes to the health of the host and is clinically effective in treating CRC. This study confirmed that 5-fluorouracil (5-FU)-resistant CRC HCT116 (HCT116/5FUR) cells acquired butyrateinsensitive properties. To date, the relationship between 5- FU-resistant CRC and butyrate resistance has not been elucidated. Here, we demonstrated that the acquisition of butyrate resistance in HCT116/5FUR cells was strongly correlated with the inhibition of the expression and function of SMCT1, a major transporter of butyrate in colonocytes. L. plantarum-cultured cell-free supernatant (LP) restored the functional expression of SMCT1 in HCT116/5FUR cells, leading to butyrate-induced antiproliferative effect and apoptosis. These results suggest that LP has a synergistic effect on the SMCT1/butyrate-mediated tumor suppressor function and is a potential chemosensitizer to overcome dual 5-FU and butyrate resistance in HCT116 cells.

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Shiyu Li, Shuangli Zhu, Jun Yu
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Sodium Butyrate Inhibits the Expression of Thymidylate Synthase and Induces Cell Death in Colorectal Cancer Cells
Nayeon Kim, Changwon Yang
International Journal of Molecular Sciences.2024; 25(3): 1572. CrossRef
Anticancer Properties of Saccharomyces boulardii Metabolite Against Colon Cancer Cells
Babak Pakbin, Samaneh Allahyari, Shaghayegh Pishkhan Dibazar, Amir Peymani, Mozhdeh Khajeh Haghverdi, Khadijeh Taherkhani, Maryam Javadi, Razzagh Mahmoudi
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The effect of oral butyrate on colonic short-chain fatty acid transporters and receptors depends on microbial status
Karla Vagnerová, Tomáš Hudcovic, Martin Vodička, Peter Ergang, Petra Klusoňová, Petra Petr Hermanová, Dagmar Šrůtková, Jiří Pácha
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Yang Chen, Bo Yang, Jianxin Zhao, R. Paul Ross, Catherine Stanton, Hao Zhang, Wei Chen
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Gut microbial metabolites: Shaping future diagnosis and treatment against gastrointestinal cancer
Hongyan Gou, Ruijie Zeng, Harry Cheuk Hay Lau, Jun Yu
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Probiotics intervention in colorectal cancer: From traditional approaches to novel strategies
Suki Ha, Xiang Zhang, Jun Yu
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Hye Ji Jang, Na-Kyoung Lee, Hyun-Dong Paik
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Karolina Kaźmierczak-Siedlecka, Nikola Bulman, Paweł Ulasiński, Bartosz Kamil Sobocki, Karol Połom, Luigi Marano, Leszek Kalinowski, Karolina Skonieczna-Żydecka
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Dalong Liu, Yun Wang, Xiaojiang Li, Yan Wang, Zhiqiang Zhang, Zhifeng Wang, Xudong Zhang
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Yali Liu, Harry Cheuk-Hay Lau, Jun Yu
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Lactobacillus plantarum Metabolites Elicit Anticancer Effects by Inhibiting Autophagy-Related Responses
Sihyun Jeong, Yuju Kim, Soyeong Park, Doyeon Lee, Juho Lee, Shwe Phyu Hlaing, Jin-Wook Yoo, Sang Hoon Rhee, Eunok Im
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Zhibo Zeng, Zonghao Huang, Wen Yue, Shah Nawaz, Xinzhu Chen, Jing Liu
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Yali Liu, Harry Cheuk-Hay Lau, Wing Yin Cheng, Jun Yu
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Xiang Lin, Xinyu Yang, Yushang Yang, Hangbin Zhang, Xuan Huang
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Nafiseh Erfanian, Saeed Nasseri, Adib Miraki Feriz, Hossein Safarpour, Mohammad Hassan Namaei
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Qiqing Yang, Bin Wang, Qinghui Zheng, Heyu Li, Xuli Meng, Fangfang Zhou, Long Zhang
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Anti-tumour effect of Huangqin Decoction on colorectal cancer mice through microbial butyrate mediated PI3K/Akt pathway suppression
Jia-Jie Zhu, Hai-Yan Liu, Liang-Jun Yang, Zheng Fang, Rui Fu, Jia-Bin Chen, Shan Liu, Bao-Ying Fei
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Fecal levels of SCFA and BCFA during capecitabine in patients with metastatic or unresectable colorectal cancer
Janine Ziemons, Romy Aarnoutse, Anne Heuft, Lars Hillege, Janneke Waelen, Judith de Vos-Geelen, Liselot Valkenburg-van Iersel, Irene E. G. van Hellemond, Geert-Jan M. Creemers, Arnold Baars, Johanna H. M. J. Vestjens, John Penders, Koen Venema, Marjolein
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Christina Thoda, Maria Touraki
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Gut microbiota and microbiota-derived metabolites in colorectal cancer: enemy or friend
Xinyi Wang, Xicai Sun, Jinjin Chu, Wenchang Sun, Shushan Yan, Yaowen Wang
World Journal of Microbiology and Biotechnology.2023;[Epub] CrossRef
Determination of the effect of L. plantarum AB6-25, L. plantarum MK55 and S. boulardii T8-3C microorganisms on colon, cervix, and breast cancer cell lines: Molecular docking, and molecular dynamics study
Seda Yalçınkaya, Serap Yalçın Azarkan, Aynur Gül Karahan Çakmakçı
Journal of Molecular Structure.2022; 1261: 132939. CrossRef
Extracellular vesicles derived from Lactobacillus plantarum restore chemosensitivity through the PDK2-mediated glucose metabolic pathway in 5-FU-resistant colorectal cancer cells
JaeJin An, Eun-Mi Ha
Journal of Microbiology.2022; 60(7): 735. CrossRef

The human symbiont Bacteroides thetaiotaomicron promotes diet-induced obesity by regulating host lipid metabolism: Sang-Hyun Cho , Yong-Joon Cho , Joo-Hong Park; J. Microbiol. 2022;60(1):118-127. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1614-1

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Abstract

The gut microbiome plays an important role in lipid metabolism. Consumption of a high-fat diet (HFD) alters the bacterial communities in the gut, leading to metabolic disorders. Several bacterial species have been associated with diet-induced obesity, nonalcoholic fatty liver disease, and metabolic syndrome. However, the mechanisms underlying the control of lipid metabolism by symbiotic bacteria remain elusive. Here, we show that the human symbiont Bacteroides thetaiotaomicron aggravates metabolic disorders by promoting lipid digestion and absorption. Administration of B. thetaiotaomicron to HFD-fed mice promoted weight gain, elevated fasting glucose levels, and impaired glucose tolerance. Furthermore, B. thetaiotaomicron treatment upregulated the gene expression of the fatty acid transporter and increased fatty acid accumulation in the liver. B. thetaiotaomicron inhibits expression of the gene encoding a lipoprotein lipase inhibitor, angiopoietin-like protein 4 (ANGPTL4), thereby increasing lipase activity in the small intestine. In particular, we found that B. thetaiotaomicron induced the expression of hepcidin, the master regulator of iron metabolism and an antimicrobial peptide, in the liver. Hepcidin treatment resulted in a decrease in ANGPTL4 expression in Caco-2 cells, whereas treatment with an iron chelator restored ANGPTL4 expression in hepcidin- treated cells. These results indicate that B. thetaiotaomicron- mediated regulation of iron storage in intestinal epithelial cells may contribute to increased fat deposition and impaired glucose tolerance in HFD-fed mice.

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Zhenyu Wang, Yifang Zhang, Xiaolei Shi, Xiaojun Li, Shangxiong Qi, Chunli Hu, Jin Zhao
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Bo Zhu, Lei Zhong, Chuang Shao, Wenjie Xu, Shuhui Xiang, Shuiquan Fu, Yi Hu
Aquaculture.2024; 587: 740900. CrossRef
Beneficial metabolic effects of PAHSAs depend on the gut microbiota in diet-induced obese mice but not in chow-fed mice
Jennifer Lee, Kerry Wellenstein, Ali Rahnavard, Andrew T. Nelson, Marlena M. Holter, Bethany P. Cummings, Vladimir Yeliseyev, Angela Castoldi, Clary B. Clish, Lynn Bry, Dionicio Siegel, Barbara B. Kahn
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Seoung Woo Ryu, Jeong Chan Moon, Byeong Seob Oh, Seung Yeob Yu, Jeong Eun Bak, Eun Seo Heo, Jae-Ho Jeong, Ju Huck Lee
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Bacteroides thetaiotaomicron ameliorates mouse hepatic steatosis through regulating gut microbial composition, gut-liver folate and unsaturated fatty acids metabolism
Hu Li, Xue-Kai Wang, Mei Tang, Lei Lei, Jian-Rui Li, Han Sun, Jing Jiang, Biao Dong, Hong-Ying Li, Jian-Dong Jiang, Zong-Gen Peng
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International Journal of Biological Macromolecules.2024; 254: 127808. CrossRef
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Yuee Guan, Shuru Zhao, Jing Li, Wenqian Zhang, Zhonghao Guo, Yi Luo, Xiaofei Jiang, Jun Li, Jianxiong Liu, Xi Chen, Zicheng Zhao, Zhe Zhang
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Martin Šimon, Špela Mikec, Santosh S. Atanur, Janez Konc, Nicholas M. Morton, Simon Horvat, Tanja Kunej
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Chenghao Lv, Xin Liu, Shiyun Chen, Yuhang Yi, Xinnian Wen, Tao Li, Si Qin
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Chan Wang, Jiyoung Ahn, Thaddeus Tarpey, Stella S. Yi, Richard B. Hayes, Huilin Li
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Hwan-Hee Jang, Hwayoung Noh, Gichang Kim, Su-Yeon Cho, Hyeon-Jeong Kim, Jeong-Sook Choe, Jeongseon Kim, Augustin Scalbert, Marc J. Gunter, Oran Kwon, Hyesook Kim
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Yask Gupta, Anna Lara Ernst, Artem Vorobyev, Foteini Beltsiou, Detlef Zillikens, Katja Bieber, Simone Sanna-Cherchi, Angela M. Christiano, Christian D. Sadik, Ralf J. Ludwig, Tanya Sezin
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Dwiyanto Jacky, Chia Bibi, Look Melvin Chee Meng, Fong Jason, Tan Gwendoline, Lim Jeremy, Chong Chun Wie
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Ju-Hyung Lee, Joo-Hong Park
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Gold nanoparticle-DNA aptamer-assisted delivery of antimicrobial peptide effectively inhibits Acinetobacter baumannii infection in mice: Jaeyeong Park , Eunkyoung Shin , Ji-Hyun Yeom , Younkyung Choi , Minju Joo , Minho Lee , Je Hyeong Kim , Jeehyeon Bae , Kangseok Lee; J. Microbiol. 2022;60(1):128-136. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1620-3

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Abstract

Acinetobacter baumannii causes multidrug resistance, leading to fatal infections in humans. In this study, we showed that Lys AB2 P3-His–a hexahistidine-tagged form of an antimicrobial peptide (AMP) loaded onto DNA aptamer-functionalized gold nanoparticles (AuNP-Apt)–can effectively inhibit A. baumannii infection in mice. When A. baumannii-infected mice were intraperitoneally injected with AuNP-Apt loaded with Lys AB2 P3-His, a marked reduction in A. baumannii colonization was observed in the mouse organs, leading to prominently increased survival time and rate of the mice compared to those of the control mice treated with AuNP-Apt or Lys AB2 P3-His only. This study shows that AMPs loaded onto AuNP-Apt could be an effective therapeutic tool against infections caused by multidrug-resistant pathogenic bacteria in humans.

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Challenges and Emerging Molecular Approaches in Combating Antimicrobial Resistance
Gene Philip Levee Ynion, Christian Jay Rosal, Arvin Zulueta, Angelo Ordanel, Christopher Marlowe Caipang
Journal of Bacteriology and Virology.2024; 54(1): 12. CrossRef
Gold Nanoparticles and Antimicrobial Peptides: A Novel Combination
Şule Balcı, Bengü Ergüden
ChemistrySelect.2024;[Epub] CrossRef
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