Journal of Microbiology

Journal Articles

Comparative genomics analysis of Pediococcus acidilactici species: Zhenzhen Li , Qi Song , Mingming Wang , Junli Ren , Songling Liu , Shancen Zhao; J. Microbiol. 2021;59(6):573-583. Published online May 15, 2021; DOI: https://doi.org/10.1007/s12275-021-0618-6

55 View
0 Download
18 Web of Science
18 Crossref

Pediococcus acidilactici is a reliable bacteriocin producer and a promising probiotic species with wide application in the food and health industry. However, the underlying genetic features of this species have not been analyzed. In this study, we performed a comprehensive comparative genomic analysis of 41 P. acidilactici strains from various ecological niches. The bacteriocin production of 41 strains were predicted and three kinds of bacteriocin encoding genes were identified in 11 P. acidilactici strains, namely pediocin PA-1, enterolysin A, and colicin-B. Moreover, whole-genome analysis showed a high genetic diversity within the population, mainly related to a large proportion of variable genomes, mobile elements, and hypothetical genes obtained through horizontal gene transfer. In addition, comparative genomics also facilitated the genetic explanation of the adaptation for host environment, which specify the protection mechanism against the invasion of foreign DNA (i.e. CRISPR/Cas locus), as well as carbohydrate fermentation. The 41 strains of P. acidilactici can metabolize a variety of carbon sources, which enhances the adaptability of this species and survival in different environments. This study evaluated the antibacterial ability, genome evolution, and ecological flexibility of P. acidilactici from the perspective of genetics and provides strong supporting evidence for its industrial development and application.

Citations

Citations to this article as recorded by

Pediococcus acidilactici Y01 reduces HFD-induced obesity via altering gut microbiota and metabolomic profiles and modulating adipose tissue macrophage M1/M2 polarization
Yujing Wang, Yu Xue, Huan Xu, Qian Zhu, Kaili Qin, Zhonglei He, Aixiang Huang, Min Mu, Xinrong Tao
Food & Function.2025;[Epub] CrossRef
Draft genome sequence of Pediococcus acidilactici 3G3 isolated from Philippine fermented pork
Zachary B. Lara, Mia Beatriz C. Amoranto, Francisco B. Elegado, Leslie Michelle M. Dalmacio, Marilen Parungao Balolong, Catherine Putonti
Microbiology Resource Announcements.2024;[Epub] CrossRef
The Potential of Pediococcus acidilactici Cell-Free Supernatant as a Preservative in Food Packaging Materials
Katherine Kho, Adinda Darwanti Kadar, Mario Donald Bani, Ihsan Tria Pramanda, Leon Martin, Matthew Chrisdianto, Ferren Pratama, Putu Virgina Partha Devanthi
Foods.2024; 13(5): 644. CrossRef
The complete genome sequences of the two novel probiotics were isolated from the human gut microbiota: Pediococcus acidilactici WNYM01 and Pediococcus acidilactici WNYM02, vitamin B9, and B2-producers
Wagiha S. Elkalla, Yasser M. Ragab, Mohamed A. Ramadan, Nahla M. Mansour
Egyptian Pharmaceutical Journal.2024; 23(4): 702. CrossRef
Effects of Pediococcus acidilactici and Rhizopus Oryzae on protein degradation and flavor formation in fermented mutton sausages
Zihan Li, Wei Su, Yingchun Mu, Qi Qi, Li Jiang
LWT.2024; 213: 117075. CrossRef
Putative Probiotic Ligilactobacillus salivarius Strains Isolated from the Intestines of Meat-Type Pigeon Squabs
Shaoqi Tian, Yinhong Jiang, Qiannan Han, Chuang Meng, Feng Ji, Bin Zhou, Manhong Ye
Probiotics and Antimicrobial Proteins.2024;[Epub] CrossRef
Effect of ginsenoside fermented by Pediococcus acidilactici XM-06 on preventing diarrhea in mice via regulating intestinal barrier function and gut microbiota
Wen-Man Xu, Qi Liu, Si-Yao Fan, Zi-Xin Wang, Shi-Rui Lu, Jie Liu, Hong-Jie Piao, Wenxiu Ji, Wei-Wei Dong
Journal of Functional Foods.2024; 123: 106594. CrossRef
Population and functional genomics of lactic acid bacteria, an important group of food microorganism: Current knowledge, challenges, and perspectives
Weicheng Li, Qiong Wu, Lai‐yu Kwok, Heping Zhang, Renyou Gan, Zhihong Sun
Food Frontiers.2024; 5(1): 3. CrossRef
CRISPR-Cas systems of lactic acid bacteria and applications in food science
Yanhua Cui, Xiaojun Qu
Biotechnology Advances.2024; 71: 108323. CrossRef
Analyzing the genetic diversity and biotechnological potential of Leuconostoc pseudomesenteroides by comparative genomics
Ismail Gumustop, Fatih Ortakci
Frontiers in Microbiology.2023;[Epub] CrossRef
Recent developments in horizontal gene transfer with the adaptive innovation of fermented foods
Ruhong Wang, Junrui Wu, Nan Jiang, Hao Lin, Feiyu An, Chen Wu, Xiqing Yue, Haisu Shi, Rina Wu
Critical Reviews in Food Science and Nutrition.2023; 63(5): 569. CrossRef
Changes in Lacto-Fermented Agaricus bisporus (White and Brown Varieties) Mushroom Characteristics, including Biogenic Amine and Volatile Compound Formation
Elena Bartkiene, Paulina Zarovaite, Vytaute Starkute, Ernestas Mockus, Egle Zokaityte, Gintare Zokaityte, João Miguel Rocha, Romas Ruibys, Dovile Klupsaite
Foods.2023; 12(13): 2441. CrossRef
Lactiplantibacillus paraplantarum BPF2 and Pediococcus acidilactici ST6, Two Bacteriocinogenic Isolated Strains from Andalusian Spontaneous Fermented Sausages
José García-López, Claudia Teso-Pérez, Antonio Martín-Platero, Juan Peralta-Sánchez, Juristo Fonollá-Joya, Manuel Martínez-Bueno, Alberto Baños
Foods.2023; 12(13): 2445. CrossRef
Exploring the impact of initial moisture content on microbial community and flavor generation in Xiaoqu baijiu fermentation
Huan Wang, Chunhong Sun, Shengzhi Yang, Yulei Ruan, Linjie Lyu, Xuewu Guo, Xiaole Wu, Yefu Chen
Food Chemistry: X.2023; 20: 100981. CrossRef
Screening and Constructing a Library of Promoter-5′-UTR Complexes with Gradient Strength in Pediococcus acidilactici
Yize Jia, Chao Huang, Yin Mao, Shenghu Zhou, Yu Deng
ACS Synthetic Biology.2023; 12(6): 1794. CrossRef
Novel pathways in bacteriocin synthesis by lactic acid bacteria with special reference to ethnic fermented foods
Basista Rabina Sharma, Prakash M. Halami, Jyoti Prakash Tamang
Food Science and Biotechnology.2022; 31(1): 1. CrossRef
Genomic analysis and in vivo efficacy of Pediococcus acidilactici as a potential probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections
Hassan M. Al-Emran, Jannatul Ferdouse Moon, Md. Liton Miah, Nigar Sultana Meghla, Rine Christopher Reuben, Mohammad Jashim Uddin, Habiba Ibnat, Shovon Lal Sarkar, Pravas Chandra Roy, M. Shaminur Rahman, A. S. M. Rubayet Ul Alam, Ovinu Kibria Islam, Iqbal
Scientific Reports.2022;[Epub] CrossRef
Production of Antibacterial Agents and Genomic Characteristics of Probiotics Strains for the Foodborne Pathogen Control
Su Jin Kim, Jin Song Shin, Han Sol Park, Ji Seop Song, Ki Won Lee, Woo-Suk Bang, Tae Jin Cho
Current Topic in Lactic Acid Bacteria and Probiotics.2022; 8(1): 1. CrossRef

Trichoderma biodiversity in major ecological systems of China: Kai Dou , Jinxin Gao , Chulong Zhang , Hetong Yang , Xiliang Jiang , Jishun Li , Yaqian Li , Wei Wang , Hongquan Xian , Shigui Li , Yan Liu , Jindong Hu , Jie Chen; J. Microbiol. 2019;57(8):668-675. Published online May 23, 2019; DOI: https://doi.org/10.1007/s12275-019-8357-7

49 View
0 Download
27 Web of Science
25 Crossref

Abstract

An investigation of Trichoderma biodiversity involving a large-scale environmental gradient was conducted to understand the Trichoderma distribution in China. A total of 3,999 isolates were isolated from forestry, grassland, wetland and agriculture ecosystems, and 50 species were identified based on morphological characteristics and sequence analysis of genetic markers. Trichoderma harzianum showed the largest proportion of isolates and the most extensive distribution. Hypocrea semiorbis, T. epimyces, T. konilangbra, T. piluliferum, T. pleurotum, T. pubescens, T. strictipilis, T. hunua, T. oblongisporum and an unidentified species, Trichoderma sp. MA 3642, were first reported in China. Most Trichoderma species were distributed in Jilin and Heilongjiang Provinces in northeast China and the fewest were distributed in Qinghai Province. Based on the division of ecological and geographic factors, forestry ecosystems and low-altitude regions have the greatest species biodiversity of Trichoderma.

Citations

Citations to this article as recorded by

Genomic Characterization and Establishment of a Genetic Manipulation System for Trichoderma sp. (Harzianum Clade) LZ117
Jie Yang, Cristopher Reyes Loaiciga, Hou-Ru Yue, Ya-Jing Hou, Jun Li, Cheng-Xi Li, Jing Li, Yue Zou, Shuai Zhao, Feng-Li Zhang, Xin-Qing Zhao
Journal of Fungi.2024; 10(10): 697. CrossRef
Trichoderma Diversity in Mexico: A Systematic Review and Meta-Analysis
Hector Osvaldo Ahedo-Quero, Teodulfo Aquino-Bolaños, Yolanda Donají Ortiz-Hernández, Edgar García-Sánchez
Diversity.2024; 16(1): 68. CrossRef
Eleven new species of Trichoderma (Hypocreaceae, Hypocreales) from China
Rui Zhao, Ke-Yu Chen, Li-Juan Mao, Chu-Long Zhang
Mycology.2024; : 1. CrossRef
Screening of the Biocontrol Efficacy of Potent Trichoderma Strains against Fusarium oxysporum f.sp. ciceri and Scelrotium rolfsii Causing Wilt and Collar Rot in Chickpea
Ranjna Kumari, Vipul Kumar, Ananta Prasad Arukha, Muhammad Fazle Rabbee, Fuad Ameen, Bhupendra Koul
Microorganisms.2024; 12(7): 1280. CrossRef
First report of Trichoderma guizhouense isolated from soil in Türkiye
Yunus Korkom, Ayhan Yıldız
Journal of Plant Diseases and Protection.2024; 131(2): 619. CrossRef
Biocontrol mechanisms of poplar leaf blight due to Nigrospora oryzae
Jin Han, Zhantong Lu, Huifang Zhang, Shida Ji, Bin Liu, Ning Kong, Yongfeng Yang, Baoyue Xing, Zhihua Liu
Physiologia Plantarum.2024;[Epub] CrossRef
Genetic diversity and antagonistic properties of Trichoderma strains from the crop rhizospheres in southern Rajasthan, India
Prashant P. Jambhulkar, Bhumica Singh, M. Raja, Adnan Ismaiel, Dilip K. Lakshman, Maharishi Tomar, Pratibha Sharma
Scientific Reports.2024;[Epub] CrossRef
Phosphate-solubilising bacteria promote horticultural plant growth through phosphate solubilisation and phytohormone regulation
Yu Zhao, Sicen Liu, Bing He, Min Sun, Jishou Li, Rong Peng, Liangliang Sun, Xiaopeng Wang, Youpeng Cai, Hehe Wang, Xueqing Geng
New Zealand Journal of Crop and Horticultural Science.2024; 52(2): 125. CrossRef
First Report of Enterobacter cloacae Causing Stem, Leaf, and Fruit Rot on Tomato in China
Yazhong Jin, Xingbiao Wu, Rina Sa, Hanchi Dong, Yanan Xiong, Shuping He, Chunxia Li, Xueqing Geng
Plant Disease.2023; 107(6): 1936. CrossRef
Structure and ecological function of the soil microbiome associated with ‘Sanghuang’ mushrooms suffering from fungal diseases
Weifang Xu, Tao Sun, Jiahui Du, Shuqing Jin, Ying Zhang, Guofa Bai, Wanyu Li, Dengke Yin
BMC Microbiology.2023;[Epub] CrossRef
Beneficial and biocontrol effects of Trichoderma atroviride, a dominant species in white birch rhizosphere soil
Kuo Liu, Yu-Zhou Zhang, Hua-Ying Du, Zhi-Ying Wang, Pei-Wen Gu, Zhi-Hua Liu, Ze-Yang Yu
Frontiers in Microbiology.2023;[Epub] CrossRef
Three new species of Trichoderma (Hypocreales, Hypocreaceae) from soils in China
Rui Zhao, Li-Juan Mao, Chu-Long Zhang
MycoKeys.2023; 97: 21. CrossRef
Combination of Aspergillus niger MJ1 with Pseudomonas stutzeri DSM4166 or mutant Pseudomonas fluorescens CHA0-nif improved crop quality, soil properties, and microbial communities in barrier soil
Haiping Ni, Yuxia Wu, Rui Zong, Shiai Ren, Deng Pan, Lei Yu, Jianwei Li, Zhuling Qu, Qiyao Wang, Gengxing Zhao, Jianzhong Zhao, Lumin Liu, Tao Li, Youming Zhang, Qiang Tu
Frontiers in Microbiology.2023;[Epub] CrossRef
Journey of Trichoderma from Pilot Scale to Mass Production: A Review
Vipul Kumar, Bhupendra Koul, Pooja Taak, Dhananjay Yadav, Minseok Song
Agriculture.2023; 13(10): 2022. CrossRef
Trichoderma hamatum and Its Benefits
Rathna Silviya Lodi, Chune Peng, Xiaodan Dong, Peng Deng, Lizeng Peng
Journal of Fungi.2023; 9(10): 994. CrossRef
Biocontrol Potential of Trichoderma harzianum and Zinc Nanoparticles to Mitigate Gray Mold Disease of Tomato
Muhammad Imran, Kamal A. M. Abo-Elyousr, Mohamed E. El-Sharnouby, Esmat F. Ali, Nashwa M. A. Sallam, Hadeel M. M. Khalil Bagy, Ismail R. Abdel-Rahim
Gesunde Pflanzen.2023; 75(1): 151. CrossRef
Screening and biocontrol evaluation of indigenous native Trichoderma spp. against early blight disease and their field assessment to alleviate natural infection
Muhammad Imran, Kamal A. M. Abo-Elyousr, Magdi A. Mousa, Maged M. Saad
Egyptian Journal of Biological Pest Control.2022;[Epub] CrossRef
Trichoderma: Advent of Versatile Biocontrol Agent, Its Secrets and Insights into Mechanism of Biocontrol Potential
Nazia Manzar, Abhijeet Shankar Kashyap, Ravi Shankar Goutam, Mahendra Vikram Singh Rajawat, Pawan Kumar Sharma, Sushil Kumar Sharma, Harsh Vardhan Singh
Sustainability.2022; 14(19): 12786. CrossRef
A novel salt-tolerant strain Trichoderma atroviride HN082102.1 isolated from marine habitat alleviates salt stress and diminishes cucumber root rot caused by Fusarium oxysporum
Chongyuan Zhang, Weiwei Wang, Yihui Hu, Zhongpin Peng, Sen Ren, Ming Xue, Zhen Liu, Jumei Hou, Mengyu Xing, Tong Liu
BMC Microbiology.2022;[Epub] CrossRef
Trichogenic Silver-Based Nanoparticles for Suppression of Fungi Involved in Damping-Off of Cotton Seedlings
Shimaa A. Zaki, Salama A. Ouf, Kamel A. Abd-Elsalam, Amal A. Asran, Mohamed M. Hassan, Anu Kalia, Fawziah M. Albarakaty
Microorganisms.2022; 10(2): 344. CrossRef
Diversity and effects of competitive Trichoderma species in Ganoderma lucidum–cultivated soils
Yongjun Wang, Linzhou Zeng, Jiayi Wu, Hong Jiang, Li Mei
Frontiers in Microbiology.2022;[Epub] CrossRef
Biocontrol and growth-promoting effect of Trichoderma asperellum TaspHu1 isolate from Juglans mandshurica rhizosphere soil
Zeyang Yu, Zhiying Wang, Yuzhou Zhang, Yucheng Wang, Zhihua Liu
Microbiological Research.2021; 242: 126596. CrossRef
Trichoderma harzianum-Mediated ZnO Nanoparticles: A Green Tool for Controlling Soil-Borne Pathogens in Cotton
Shimaa A. Zaki, Salama A. Ouf, Fawziah M. Albarakaty, Marian M. Habeb, Aly A. Aly, Kamel A. Abd-Elsalam
Journal of Fungi.2021; 7(11): 952. CrossRef
How Do Trichoderma Genus Fungi Win a Nutritional Competition Battle against Soft Fruit Pathogens? A Report on Niche Overlap Nutritional Potentiates
Karolina Oszust, Justyna Cybulska, Magdalena Frąc
International Journal of Molecular Sciences.2020; 21(12): 4235. CrossRef
Isolation of Trichoderma in the rhizosphere soil of Syringa oblata from Harbin and their biocontrol and growth promotion function
Bin Liu, Shida Ji, Huifang Zhang, Yucheng Wang, Zhihua Liu
Microbiological Research.2020; 235: 126445. CrossRef

Molecular diversity and distribution of indigenous arbuscular mycorrhizal communities colonizing roots of two different winter cover crops in response to their root proliferation: Masao Higo , Katsunori Isobe , Yusuke Miyazawa , Yukiya Matsuda , Rhae A. Drijber , Yoichi Torigoe; J. Microbiol. 2016;54(2):86-97. Published online February 2, 2016; DOI: https://doi.org/10.1007/s12275-016-5379-2

47 View
0 Download
19 Crossref

Abstract

A clear understanding of how crop root proliferation affects the distribution of the spore abundance of arbuscular mycorrhizal fungi (AMF) and the composition of AMF communities in agricultural fields is imperative to identify the potential roles of AMF in winter cover crop rotational systems. Toward this goal, we conducted a field trial using wheat (Triticum aestivum L.) or red clover (Trifolium pratense L.) grown during the winter season. We conducted a molecular analysis to compare the diversity and distribution of AMF communities in roots and spore abundance in soil cropped with wheat and red clover. The AMF spore abundance, AMF root colonization, and abundance of root length were investigated at three different distances from winter crops (0 cm, 7.5 cm, and 15 cm), and differences in these variables were found between the two crops. The distribution of specific AMF communities and variables responded to the two winter cover crops. The majority of Glomerales phylotypes were common to the roots of both winter cover crops, but Gigaspora phylotypes in Gigasporales were found only in red clover roots. These
results
also demonstrated that the diversity of the AMF colonizing the roots did not significantly change with the three distances from the crop within each rotation but was strongly influenced by the host crop identity. The distribution of specific AMF phylotypes responded to the presence of wheat and red clover roots, indicating that the host crop identity was much more important than the proliferation of crop roots in determining the diversity of the AMF communities.

Citations

Citations to this article as recorded by

Enhanced Soil Fertility and Carbon Dynamics in Organic Farming Systems: The Role of Arbuscular Mycorrhizal Fungal Abundance
So Hee Park, Bo Ram Kang, Jinsook Kim, Youngmi Lee, Hong Shik Nam, Tae Kwon Lee
Journal of Fungi.2024; 10(9): 598. CrossRef
Cover Crops Modulate the Response of Arbuscular Mycorrhizal Fungi to Water Supply: A Field Study in Corn
Micaela Tosi, Cameron M. Ogilvie, Federico N. Spagnoletti, Sarah Fournier, Ralph C. Martin, Kari E. Dunfield
Plants.2023; 12(5): 1015. CrossRef
Cover crop identity determines root fungal community and arbuscular mycorrhiza colonization in following main crops
Irene García‐González, Laura B. Martínez‐García, Janna M. Barel, Henk Martens, L. Basten Snoek, Chiquinquirá Hontoria, Gerlinde B. De Deyn
European Journal of Soil Science.2023;[Epub] CrossRef
Effects of Carbon Amendments, Tillage and Cover Cropping on Arbuscular Mycorrhizal Fungi Association and Root Architecture in Corn and Cotton Crop Sequence
Binita Thapa, Jake Mowrer
Agronomy.2022; 12(9): 2185. CrossRef
The biological sink of atmospheric H2 is more sensitive to spatial variation of microbial diversity than N2O and CO2 emissions in a winter cover crop field trial
Xavier Baril, Audrey-Anne Durand, Narin Srei, Steve Lamothe, Caroline Provost, Christine Martineau, Kari Dunfield, Philippe Constant
Science of The Total Environment.2022; 821: 153420. CrossRef
Glomerales Dominate Arbuscular Mycorrhizal Fungal Communities Associated with Spontaneous Plants in Phosphate-Rich Soils of Former Rock Phosphate Mining Sites
Amandine Ducousso-Détrez, Robin Raveau, Joël Fontaine, Mohamed Hijri, Anissa Lounès-Hadj Sahraoui
Microorganisms.2022; 10(12): 2406. CrossRef
Arbuscular mycorrhizal fungi and soil aggregation in a no‐tillage system with crop rotation
Mara Regina Moitinho, Carolina Fernandes, Priscila Viviane Truber, Adolfo Valente Marcelo, José Eduardo Corá, Elton da Silva Bicalho
Journal of Plant Nutrition and Soil Science.2020; 183(4): 482. CrossRef
Fungal community shifts in soils with varied cover crop treatments and edaphic properties
Mara L. Cloutier, Ebony Murrell, Mary Barbercheck, Jason Kaye, Denise Finney, Irene García-González, Mary Ann Bruns
Scientific Reports.2020;[Epub] CrossRef
Impact of Phosphorus Fertilization on Tomato Growth and Arbuscular Mycorrhizal Fungal Communities
Masao Higo, Mirai Azuma, Yusuke Kamiyoshihara, Akari Kanda, Yuya Tatewaki, Katsunori Isobe
Microorganisms.2020; 8(2): 178. CrossRef
First report of community dynamics of arbuscular mycorrhizal fungi in radiocesium degradation lands after the Fukushima-Daiichi Nuclear disaster in Japan
Masao Higo, Dong-Jin Kang, Katsunori Isobe
Scientific Reports.2019;[Epub] CrossRef
Cover cropping can be a stronger determinant than host crop identity for arbuscular mycorrhizal fungal communities colonizing maize and soybean
Masao Higo, Yuya Tatewaki, Kento Gunji, Akari Kaseda, Katsunori Isobe
PeerJ.2019; 7: e6403. CrossRef
The cover crop determines the AMF community composition in soil and in roots of maize after a ten-year continuous crop rotation
C. Hontoria, I. García-González, M. Quemada, A. Roldán, M.M. Alguacil
Science of The Total Environment.2019; 660: 913. CrossRef
Phosphorus Acquisition Efficiency Related to Root Traits: Is Mycorrhizal Symbiosis a Key Factor to Wheat and Barley Cropping?
Pedro Campos, Fernando Borie, Pablo Cornejo, Juan A. López-Ráez, Álvaro López-García, Alex Seguel
Frontiers in Plant Science.2018;[Epub] CrossRef
How are arbuscular mycorrhizal associations related to maize growth performance during short‐term cover crop rotation?
Masao Higo, Yuichi Takahashi, Kento Gunji, Katsunori Isobe
Journal of the Science of Food and Agriculture.2018; 98(4): 1388. CrossRef
Legacy of eight‐year cover cropping on mycorrhizae, soil, and plants
Irene García-González, Miguel Quemada, José Luis Gabriel, María Alonso-Ayuso, Chiquinquirá Hontoria
Journal of Plant Nutrition and Soil Science.2018; 181(6): 818. CrossRef
Mycorrhizal fungal community structure in tropical humid soils under fallow and cropping conditions
Martin Jemo, Driss Dhiba, Abeer Hashem, Elsayed Fathi Abd_Allah, Abdulaziz A. Alqarawi, Lam-Son Phan Tran
Scientific Reports.2018;[Epub] CrossRef
Effect of winter wheat cover cropping with no-till cultivation on the community structure of arbuscular mycorrhizal fungi colonizing the subsequent soybean
Sho Morimoto, Tomoko Uchida, Hisaya Matsunami, Hiroyuki Kobayashi
Soil Science and Plant Nutrition.2018; 64(5): 545. CrossRef
Can phosphorus application and cover cropping alter arbuscular mycorrhizal fungal communities and soybean performance after a five-year phosphorus-unfertilized crop rotational system?
Masao Higo, Ryohei Sato, Ayu Serizawa, Yuichi Takahashi, Kento Gunji, Yuya Tatewaki, Katsunori Isobe
PeerJ.2018; 6: e4606. CrossRef
A study of Glycine max (soybean) fungal communities under different agricultural practices
Sarah L. Dean, Terri Billingsley Tobias, Winthrop B. Phippen, Andrew W. Clayton, Joel Gruver, Andrea Porras-Alfaro
Plant Gene.2017; 11: 8. CrossRef

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

A Functional and Phylogenetic Comparison of Quorum Sensing Related Genes in Brucella melitensis 16M: Aniel Jessica Leticia Brambila-Tapia , Ernesto Pérez-Rueda; J. Microbiol. 2014;52(8):709-715. Published online July 4, 2014; DOI: https://doi.org/10.1007/s12275-014-3570-x

50 View
0 Download
5 Crossref

Abstract

A quorum-sensing (QS) system is involved in Brucella melitensis survival inside the host cell. Two transcriptional regulators identified in B. melitensis, BlxR and VjbR, regulate the expression of virB, an operon required for bacterial intracellular persistence. In this work, 628 genes affected by VjbR and 124 by BlxR were analyzed to gain insights into their functional and taxonomical distributions among the Bacteria and Archaea cellular domains. In this regard, the Cluster of Orthologous Groups (COG) genes and orthologous genes in 789 nonredundant bacterial and archaeal genomes were obtained and compared against a group of randomly selected genes. From these analyses, we found 71 coaffected genes between VjbR and BlxR. In the COG comparison, VjbR activated genes associated with intracellular trafficking, secretion and vesicular transport and defense mechanisms, while BlxR affected genes related to energy production and conversion (with an equal effect) and translation, ribosomal structure and biogenesis, posttranslational modifications and carbohydrate and amino acid metabolism (with a negative effect). When the taxonomical distribution of orthologous genes was evaluated, the VjbR- and BlxRrelated genes presented more orthologous genes in Crenarchaeota (Archaea), Firmicutes, and Tenericutes and fewer genes in Proteobacteria than expected by chance. These findings suggest that QS system exert a fine-tuning modulation of gene expression, by which VjbR activates genes related to infection persistence and defense, while BlxR represses general bacterial metabolism for intracellular adaptations. Finally, these affected genes present a degree of presence among Bacteria and Archaea genomes that is different from that expected by chance.

Citations

Citations to this article as recorded by

Brucella mediates autophagy, inflammation, and apoptosis to escape host killing
Yaqiong Qin, Gengxu Zhou, Fengyuan Jiao, Chuan Cheng, Chi Meng, Lingjie Wang, Shengping Wu, Cailiang Fan, Jixiang Li, Bo Zhou, Yuefeng Chu, Hanwei Jiao
Frontiers in Cellular and Infection Microbiology.2024;[Epub] CrossRef
The VirB System Plays a Crucial Role in Brucella Intracellular Infection
Xue Xiong, Bowen Li, Zhixiong Zhou, Guojing Gu, Mengjuan Li, Jun Liu, Hanwei Jiao
International Journal of Molecular Sciences.2021; 22(24): 13637. CrossRef
Uncovering the Hidden Credentials ofBrucellaVirulence
R. Martin Roop, Ian S. Barton, Dariel Hopersberger, Daniel W. Martin
Microbiology and Molecular Biology Reviews.2021;[Epub] CrossRef
Rich Repertoire of Quorum Sensing Protein Coding Sequences in CPR and DPANN Associated with Interspecies and Interkingdom Communication
Charles Bernard, Romain Lannes, Yanyan Li, Éric Bapteste, Philippe Lopez, Robert G. Beiko
mSystems.2020;[Epub] CrossRef
BASI74, a Virulence-Related sRNA in Brucella abortus
Hao Dong, Xiaowei Peng, Yufu Liu, Tonglei Wu, Xiaolei Wang, Yanyan De, Tao Han, Lin Yuan, Jiabo Ding, Chuanbin Wang, Qingmin Wu
Frontiers in Microbiology.2018;[Epub] CrossRef

Phylogenetic Relationships of Korean Sparassis latifolia Based on Morphological and ITS rDNA Characteristics: Rhim Ryoo , Hong-Duck Sou , Kang-Hyeon Ka , Hyun Park; J. Microbiol. 2013;51(1):43-48. Published online March 2, 2013; DOI: https://doi.org/10.1007/s12275-013-2503-4

36 View
0 Download
22 Scopus

Abstract: Recent studies based on morphological characteristics and molecular analyses have revealed that the characteristics of Sparassis crispa from Asia are not concordant with those of collections from Europe and North America. Consequently, the Asian isolate was redefined as Sparassis latifolia. This study is the first report of Sparassis latifolia collected in Korea. The taxonomic relationships and replacement of Sparassis species were inferred from a comparison of the morphological characteristics and by molecular sequence analysis of the internal transcribed spacer (ITS) rDNA regions. In particular, this study focused on the phylogenetic relationships inferred from the biogeographical distribution of isolates within the genus Sparassis.

Effects of Phosphate Addition on Biofilm Bacterial Communities and Water Quality in Annular Reactors Equipped with Stainless Steel and Ductile Cast Iron Pipes: Hyun-Jung Jang , Young-June Choi , Hee-Myong Ro , Jong-Ok Ka; J. Microbiol. 2012;50(1):17-28. Published online February 27, 2012; DOI: https://doi.org/10.1007/s12275-012-1040-x

37 View
0 Download
34 Scopus

Abstract: The impact of orthophosphate addition on biofilm formation and water quality was studied in corrosion-resistant stainless steel (STS) pipe and corrosion-susceptible ductile cast iron (DCI) pipe using cultivation and culture-independent approaches. Sample coupons of DCI pipe and STS pipe were installed in annular reactors, which were operated for 9 months under hydraulic conditions similar to a domestic plumbing system. Addition of 5 mg/L of phosphate to the plumbing systems, under low residual chlorine conditions, promoted a more significant growth of biofilm and led to a greater rate reduction of disinfection by-products in DCI pipe than in STS pipe. While the level of THMs (trihalomethanes) increased under conditions of low biofilm concentration, the levels of HAAs (halo acetic acids) and CH (chloral hydrate) decreased in all cases in proportion to the amount of biofilm. It was also observed that chloroform, the main species of THM, was not readily decomposed biologically and decomposition was not proportional to the biofilm concentration; however, it was easily biodegraded after the addition of phosphate. Analysis of the 16S rDNA sequences of 102 biofilm isolates revealed that Proteobacteria (50%) was the most frequently detected phylum, followed by Firmicutes (10%) and Actinobacteria (2%), with 37% of the bacteria unclassified. Bradyrhizobium was the dominant genus on corroded DCI pipe, while Sphingomonas was predominant on non-corroded STS pipe. Methylobacterium and Afipia were detected only in the reactor without added phosphate. PCR-DGGE analysis showed that the diversity of species in biofilm tended to increase when phosphate was added regardless of the pipe material, indicating that phosphate addition upset the biological stability in the plumbing systems.

A Survey of the Geographic Distribution of Ophiocordyceps sinensis: Yi Li , Xiao-Liang Wang , Lei Jiao , Yi Jiang , Hui Li , Si-Ping Jiang , Ngarong Lhosumtseiring , Shen-Zhan Fu , Cai-Hong Dong , Yu Zhan , Yi-Jian Yao; J. Microbiol. 2011;49(6):913-919. Published online December 28, 2011; DOI: https://doi.org/10.1007/s12275-011-1193-z

39 View
0 Download
85 Crossref

Abstract

Ophiocordyceps sinensis is one of the best known fungi in Traditional Chinese Medicine. Many efforts have been devoted to locating the production areas of this species resulting in various reports; however, its geographic distribution remains incompletely understood. Distribution of O. sinensis at the county level is clarified in this work based on both a literature search and fieldwork. More than 3600 publications related to O. sinensis were investigated, including scientific papers, books, and online information. Herbarium specimens of O. sinensis and field collections made by this research group during the years 2000-2010 were examined to verify the distribution sites. A total of 203 localities for O. sinensis have been found, of which 106 are considered as confirmed distribution sites, 65 as possible distribution sites, 29 as excluded distribution sites and three as suspicious distribution sites. The results show that O. sinensis is confined to the Tibetan Plateau and its surrounding regions, including Tibet, Gansu, Qinghai, Sichuan, and Yunnan provinces in China and in certain areas of the southern flank of the Himalayas, in the countries of Bhutan, India and Nepal, with 3,000 m as the lowest altitude for the distribution. The fungus is distributed from the southernmost site in Yulong Naxi Autonomous County in northwestern Yunnan Province to the northernmost site in the Qilian Mountains in Qilian County, Qinghai Province, and from the east edge of the Tibetan Plateau in Wudu County, Gansu Province to the westernmost site in Uttarakhand, India. The clarification of the geographic distribution of O. sinensis will lay the foundation for conservation and sustainable use of the species.

Citations

Citations to this article as recorded by

Sustainable cultivation of phytopharmaceuticals in Baden-Wuerttemberg, Germany: a SWOT analysis and future directions
Peter W. Heger, Ilka Meinert, Peter Nick, Peter Riedl, Michael Heinrich, Michael Straub
Pharmaceutical Biology.2025; 63(1): 82. CrossRef
Integrating 2D NMR-based metabolomics and in vitro assays to explore the potential viability of cultivated Ophiocordyceps sinensis as an alternative to the wild counterpart
Xiu Gu, Yanping Li, Yang Li, Xiaohui Duan, Youfan Hu, Jialuo Chen, Huan Du, Jing Bai, Chengyan He, Caihong Bai, Jinlin Guo, Jiahui Yang, Kaifeng Hu
Journal of Pharmaceutical and Biomedical Analysis.2025; 253: 116551. CrossRef
Comparative Metabolite Profiling Between Cordyceps sinensis and Other Cordyceps by Untargeted UHPLC-MS/MS
Jing Ma, Zhenjiang Chen, Kamran Malik, Chunjie Li
Biology.2025; 14(2): 118. CrossRef
Integrating divergent stakeholder perspectives for sustainable management of high-altitude ecosystems: insights from cordyceps harvesting in the Himalayas
Suraj Upadhaya, Beeju Poudyal, Chantal Tumpach
Sustainability Science.2025; 20(1): 207. CrossRef
Climate change scenarios predict reduction in suitable habitats and range shifts for Ophiocordyceps sinensis (Berk.) in Hindu Kush Himalaya
Nadeem Salam, Harvinder Kaur Sidhu, Shaheeda Shaban, Zafar A. Reshi, Manzoor A. Shah
Journal of Asia-Pacific Biodiversity.2025; 18(1): 144. CrossRef
Molecular phylogenetics of the Ophiocordyceps sinensis-species complex lineage (Ascomycota, Hypocreales), with the discovery of new species and predictions of species distribution
Yongdong Dai, Siqi Chen, Yuanbing Wang, Yao Wang, Zhuliang Yang, Hong Yu
IMA Fungus.2024;[Epub] CrossRef
Ethnopharmacology and current conservational status of Cordyceps sinensis
Payas Arora, Nikita Bahuguna, Jigisha Anand, Prabhakar Semwal, Nishant Rai
Zeitschrift für Naturforschung C.2024;[Epub] CrossRef
Cordyceps: Alleviating ischemic cardiovascular and cerebrovascular injury - A comprehensive review
Yong Li, Liying He, Haoran Song, Xiuwen Bao, Shuqi Niu, Jing Bai, Junhao Ma, Run Yuan, Sijing Liu, Jinlin Guo
Journal of Ethnopharmacology.2024; 332: 118321. CrossRef
Effects of Drying Methods on Morphological Characteristics, Metabolite Content, and Antioxidant Capacity of Cordyceps sinensis
Mengjun Xiao, Tao Wang, Chuyu Tang, Min He, Yuling Li, Xiuzhang Li
Foods.2024; 13(11): 1639. CrossRef
Conservation of Endangered Cordyceps sinensis Through Artificial Cultivation Strategies of C. militaris, an Alternate
Kondapalli Vamsi Krishna, Balamuralikrishnan Balasubramanian, Sungkwon Park, Sukanta Bhattacharya, Joseph Kadanthottu Sebastian, Wen-Chao Liu, Manikantan Pappuswamy, Arun Meyyazhagan, Hesam Kamyab, Shreeshivadasan Chelliapan, Alok Malaviya
Molecular Biotechnology.2024;[Epub] CrossRef
Quality Evaluation, health risk Assessment, and geographic origin tracing of Ophiocordyceps sinensis through mineral element analysis
Fen Wang, Junfeng Fan, Yabin An, Guoliang Meng, Bingyu Ji, Yi Li, Caihong Dong
Microchemical Journal.2024; 201: 110512. CrossRef
Tracing the geographical origin of endangered fungus Ophiocordyceps sinensis, especially from Nagqu, using UPLC-Q-TOF-MS
Fen Wang, Junfeng Fan, Yabin An, Guoliang Meng, Bingyu Ji, Yi Li, Caihong Dong
Food Chemistry.2024; 440: 138247. CrossRef
Knockdown of Thitarodes host genes influences dimorphic transition of Ophiocordyceps sinensis in the host hemolymph
Tanqi Sun, Yongling Jin, Zhongchen Rao, Wang Liyan, Rui Tang, Khalid Muhammad Zaryab, Mingyan Li, Zhenhao Li, Ying Wang, Jing Xu, Richou Han, Li Cao
Frontiers in Cellular and Infection Microbiology.2024;[Epub] CrossRef
Nutritional Profile Changes in an Insect–Fungus Complex of Antheraea pernyi Pupa Infected by Samsoniella hepiali
Shengchao Wang, Yun Meng, Dun Wang
Foods.2023; 12(14): 2796. CrossRef
Systematic analyses with genomic and metabolomic insights reveal a new species, Ophiocordyceps indica sp. nov. from treeline area of Indian Western Himalayan region
Aakriti Sharma, Ekjot Kaur, Robin Joshi, Pooja Kumari, Abhishek Khatri, Mohit Kumar Swarnkar, Dinesh Kumar, Vishal Acharya, Gireesh Nadda
Frontiers in Microbiology.2023;[Epub] CrossRef
Traceability Evaluation of Wild and Cultivated Cordyceps sinensis by Elemental Analysis and GasBench II Coupled to Stable Isotope Ratio Mass Spectrometry
Bo Ding, Yiwen Tao, Jianjun Xie, Guangfeng Zeng, Hongbo Huang
Food Analytical Methods.2023; 16(3): 515. CrossRef
Fractional extraction and structural characterization of glycogen particles from the whole cultivated caterpillar fungus Ophiocordyceps sinensis
Qing-Hua Liu, Yu-Dong Zhang, Zhang-Wen Ma, Zheng-Ming Qian, Zhi-Hong Jiang, Wei Zhang, Liang Wang
International Journal of Biological Macromolecules.2023; 229: 507. CrossRef
Systematic review of fungi, their diversity and role in ecosystem services from the Far Eastern Himalayan Landscape (FHL)
Wei Fang, Shiva Devkota, Karuppusamy Arunachalam, Khin Min Min Phyo, Bandana Shakya
Heliyon.2023; 9(1): e12756. CrossRef
Potential bioactivities via anticancer, antioxidant, and immunomodulatory properties of cultured mycelial enriched β-D-glucan polysaccharides from a novel fungus Ophiocordyceps sinensis OS8
Suwannachom Chatnarin, Mongkol Thirabunyanon
Frontiers in Immunology.2023;[Epub] CrossRef
Integrated metabolomics and transcriptomics reveal metabolites difference between wild and cultivated Ophiocordyceps sinensis
Jianshuang Zhang, Na Wang, Wanxuan Chen, Weiping Zhang, Haoshen Zhang, Hao Yu, Yin Yi
Food Research International.2023; 163: 112275. CrossRef
Uncovering caterpillar fungus (Ophiocordyceps sinensis) consumption patterns and linking them to conservation interventions
Jun He, Carsten Smith‐Hall, Wen Zhou, Weijia Zhou, Yunshang Wang, Ben Fan
Conservation Science and Practice.2022;[Epub] CrossRef
Understanding the sustainability of Chinese caterpillar fungus harvesting: the need for better data
Carsten Smith-Hall, Rune B. Bennike
Biodiversity and Conservation.2022; 31(2): 729. CrossRef
Medium optimization for high mycelial soluble protein content of Ophiocordyceps sinensis using response surface methodology
Chu-Yu Tang, Jie Wang, Xin Liu, Jian-Bo Chen, Jing Liang, Tao Wang, Wayne Roydon Simpson, Yu-Ling Li, Xiu-Zhang Li
Frontiers in Microbiology.2022;[Epub] CrossRef
Lipidomic profiling of wild cordyceps and its substituents by liquid chromatography-electrospray ionization-tandem mass spectrometry
Manting Lin, Shan Guo, Di Xie, Sheng Li, Hankun Hu
LWT.2022; 163: 113497. CrossRef
The potential role of medicinal mushrooms as prebiotics in aquaculture: A review
Kannan Mohan, Durairaj Karthick Rajan, Thirunavukkarasu Muralisankar, Abirami Ramu Ganesan, Kasi Marimuthu, Palanivel Sathishkumar
Reviews in Aquaculture.2022; 14(3): 1300. CrossRef
Glyceroglycolipids from the solid culture of Ophiocordyceps sinensis strain LY34 isolated from Tibet of China
Baosong Chen, Jinghan Lin, Ao Xu, Dan Yu, Dorji Phurbu, Huanqin Dai, Yi Li, Hongwei Liu
Mycology.2022; 13(3): 185. CrossRef
Efficacy of Aqueous Extract of Chinese Caterpillar Mushroom Ophiocordyceps sinensis (Ascomycota) Against Simulated Altitude Stress and Subacute Toxicity Studies
Purva Sharma, Rajkumar Tulsawani
International Journal of Medicinal Mushrooms.2022; 24(11): 21. CrossRef
Microbial Diversity Analyses of Fertilized Thitarodes Eggs and Soil Provide New Clues About the Occurrence of Chinese Cordyceps
Yue-Hui Hong, Zhan-Hua Mai, Cheng-Ji Li, Qiu-Yi Zheng, Lian-Xian Guo
Current Microbiology.2022;[Epub] CrossRef
Novel formulation development from Ophiocordyceps sinensis (Berk.) for management of high-altitude maladies
Rakhee, Jigni Mishra, Renu Bala Yadav, D. K. Meena, Rajesh Arora, R. K. Sharma, Kshipra Misra
3 Biotech.2021;[Epub] CrossRef
Advances in research on chemical constituents and pharmacological effects of Paecilomyces hepiali
Akang Dan, Yujia Hu, Ruyan Chen, Xiangyang Lin, Yongqi Tian, Shaoyun Wang
Food Science and Human Wellness.2021; 10(4): 401. CrossRef
Typification of Sphaeria sinensis to precisely fix the application of the name of the economically important Chinese caterpillar fungus, Ophiocordyceps sinensis
Yi Li, Lan Jiang, David L. Hawksworth, Yong‐Hui Wang, Jiao‐Jiao Lu, Yi‐Jian Yao
TAXON.2021; 70(6): 1329. CrossRef
Potential range expansion and niche shift of the invasive Hyphantria cunea between native and invasive countries
Xinggang Tang, Yingdan Yuan, Xiaofei Liu, Jinchi Zhang
Ecological Entomology.2021; 46(4): 910. CrossRef
Structure and immunomodulatory activity of a water-soluble α-glucan from Hirsutella sinensis mycelia
Lin Rong, Guoqiang Li, Yuxia Zhang, Yuancan Xiao, Yajun Qiao, Mengmeng Yang, Lixin Wei, Hongtao Bi, Tingting Gao
International Journal of Biological Macromolecules.2021; 189: 857. CrossRef
Chinese caterpillar fungus (Ophiocordyceps sinensis) in China: Current distribution, trading, and futures under climate change and overexploitation
Yanqiang Wei, Liang Zhang, Jinniu Wang, Wenwen Wang, Naudiyal Niyati, Yanlong Guo, Xufeng Wang
Science of The Total Environment.2021; 755: 142548. CrossRef
Moderate warming will expand the suitable habitat of Ophiocordyceps sinensis and expand the area of O. sinensis with high adenosine content
Yanlong Guo, Zefang Zhao, Xin Li
Science of The Total Environment.2021; 787: 147605. CrossRef
The complete mitochondrial genome of Ophiocordyceps gracilis and its comparison with related species
Aifeire Abuduaini, Yuan-Bing Wang, Hui-Ying Zhou, Rui-Ping Kang, Ming-Liang Ding, Yu Jiang, Fei-Ya Suo, Luo-Dong Huang
IMA Fungus.2021;[Epub] CrossRef
Arsenic Content, Speciation, and Distribution in Wild Cordyceps sinensis
Yuancan Xiao, Cen Li, Wei Xu, Yuzhi Du, Ming Zhang, Hongxia Yang, Lixin Wei, Hongtao Bi, Adolfo Andrade-Cetto
Evidence-Based Complementary and Alternative Medicine.2021; 2021: 1. CrossRef
A simple and effective method to discern the true commercial Chinese cordyceps from counterfeits
Fu-Li Zhang, Xiao-Feng Yang, Dong Wang, Shao-Rong Lei, Ling-An Guo, Wen-Juan Liu, Jun Song
Scientific Reports.2020;[Epub] CrossRef
Analysis of Volatile Components in Different Ophiocordyceps sinensis and Insect Host Products
Xuehong Qiu, Li Cao, Richou Han
Molecules.2020; 25(7): 1603. CrossRef
Quorum Sensing Activity and Hyphal Growth by External Stimuli in the Entomopathogenic Fungus Ophiocordyceps sinensis
Guiqing Liu, Li Cao, Xuehong Qiu, Richou Han
Insects.2020; 11(4): 205. CrossRef
Genomic analyses reveal evolutionary and geologic context for the plateau fungus Ophiocordyceps sinensis
Jie Liu, Linong Guo, Zongwei Li, Zhe Zhou, Zhen Li, Qian Li, Xiaochen Bo, Shengqi Wang, Junli Wang, Shuangcheng Ma, Jian Zheng, Ying Yang
Chinese Medicine.2020;[Epub] CrossRef
Comparative metabolic profiling of Ophiocordyceps sinensis and its cultured mycelia using GC–MS
Jianshuang Zhang, Hao Yu, Shaosong Li, Xin Zhong, Haizhen Wang, Xin Liu
Food Research International.2020; 134: 109241. CrossRef
Uncovering fungal community composition in natural habitat of Ophiocordyceps sinensis using high-throughput sequencing and culture-dependent approaches
Chuan-Bo Zhang, Chao-Hui Ren, Yan-Li Wang, Qi-Qi Wang, Yun-Sheng Wang, Qing-Bei Weng
BMC Microbiology.2020;[Epub] CrossRef
Revealing mitogenome-wide DNA methylation and RNA editing of three Ascomycotina fungi using SMRT sequencing
Chaoxia Wang, Jianhua Feng, Yujiao Chen, Dongmei Li, Li Liu, Yuqian Wu, Shujun Zhang, Simiao Du, Yaozhou Zhang
Mitochondrion.2020; 51: 88. CrossRef
Microscopic Authentication of Commercial Herbal Products in the Globalized Market: Potential and Limitations
Mihael Cristin Ichim, Annette Häser, Peter Nick
Frontiers in Pharmacology.2020;[Epub] CrossRef
Vegetative development and host immune interaction of Ophiocordyceps sinensis within the hemocoel of the ghost moth larva, Thitarodes xiaojinensis
Miaomiao Li, Qian Meng, Huan Zhang, Ruoyao Ni, Guiling Zhou, Yanni Zhao, Peipei Wu, Ruihao Shu, Qilian Qin, Jihong Zhang
Journal of Invertebrate Pathology.2020; 170: 107331. CrossRef
Composition and predictive functional analysis of bacterial communities inhabiting Chinese Cordyceps insight into conserved core microbiome
Fei Xia, Xin Zhou, Yan Liu, Yuling Li, Xiaohui Bai, Xuanwei Zhou
BMC Microbiology.2019;[Epub] CrossRef
Characterization of Humic Substances in the Soils of Ophiocordyceps sinensis Habitats in the Sejila Mountain, Tibet: Implication for the Food Source of Thitarodes Larvae
Yan Li, Lian-Xian Guo, Qian-Zhi Zhou, Di Chen, Jin-Zhong Liu, Xiao-Ming Xu, Jiang-Hai Wang
Molecules.2019; 24(2): 246. CrossRef
Artificial Cultivation of the Chinese Cordyceps From Injected Ghost Moth Larvae
Guiqing Liu, Richou Han, Li Cao, Rebecca Schmidt-Jeffris
Environmental Entomology.2019; 48(5): 1088. CrossRef
Comparative study of the composition of cultivated, naturally grown Cordyceps sinensis, and stiff worms across different sampling years
Yujue Zhou, Min Wang, Hui Zhang, Zhuo Huang, Jun Ma, Branislav T. Šiler
PLOS ONE.2019; 14(12): e0225750. CrossRef
Complete mitochondrial genome of two Thitarodes species (Lepidoptera, Hepialidae), the host moths of Ophiocordyceps sinensis and phylogenetic implications
Min Zhang, Zhimei Gao, Jie Yin, Tingting Zhang, Xueyao Zhang, Dongwei Yuan, Tao Li, Yang Zhong, Enbo Ma, Zhumei Ren
International Journal of Biological Macromolecules.2019; 140: 794. CrossRef
Phylogeographic structures of the host insects of Ophiocordyceps sinensis
Yongdong Dai, Changkui Wu, Yuanbing Wang, Yao Wang, Luodong Huang, Xijun Dang, Xuanxue Mo, Pusheng Zeng, Zhuliang Yang, Darong Yang, Canming Zhang, Paul Lemetti, Hong Yu
Zoology.2019; 134: 27. CrossRef
High altitude organic gold: The production network for Ophiocordyceps sinensis from far-western Nepal
Mariève Pouliot, Dipesh Pyakurel, Carsten Smith-Hall
Journal of Ethnopharmacology.2018; 218: 59. CrossRef
Investigation on natural resources and species conservation of Ophiocordyceps sinensis, the famous medicinal fungus endemic to the Tibetan Plateau
Wenjing Wang, Ke Wang, Xiaoliang Wang, Ruiheng Yang, Yi Li, Yijian Yao
Protein & Cell.2018; 9(8): 671. CrossRef
Fungus-larva relation in the formation of Cordyceps sinensis as revealed by stable carbon isotope analysis
Lian-Xian Guo, Yue-Hui Hong, Qian-Zhi Zhou, Qing Zhu, Xiao-Ming Xu, Jiang-Hai Wang
Scientific Reports.2017;[Epub] CrossRef
SMRT Sequencing Revealed Mitogenome Characteristics and Mitogenome-Wide DNA Modification Pattern in Ophiocordyceps sinensis
Xincong Kang, Liqin Hu, Pengyuan Shen, Rui Li, Dongbo Liu
Frontiers in Microbiology.2017;[Epub] CrossRef
The mitochondrial genome of the lepidopteran host cadaver (Thitarodes sp.) of Ophiocordyceps sinensis and related phylogenetic analysis
Xincong Kang, Yongquan Hu, Jiang Hu, Liqin Hu, Feng Wang, Dongbo Liu
Gene.2017; 598: 32. CrossRef
Range shifts in response to climate change of Ophiocordyceps sinensis, a fungus endemic to the Tibetan Plateau
Yujing Yan, Yi Li, Wen-Jing Wang, Jin-Sheng He, Rui-Heng Yang, Hai-Jun Wu, Xiao-Liang Wang, Lei Jiao, Zhiyao Tang, Yi-Jian Yao
Biological Conservation.2017; 206: 143. CrossRef
Safety assessment of cultivated fruiting body of Ophiocordyceps sinensis evaluated through subacute toxicity in rats
Shin Yee Fung, Sook Shien Lee, Nget Hong Tan, Jayalakshmi Pailoor
Journal of Ethnopharmacology.2017; 206: 236. CrossRef
Detection of Ophiocordyceps sinensis and Its Common Adulterates Using Species-Specific Primers
Yang Liu, Xiao-yue Wang, Zi-tong Gao, Jian-ping Han, Li Xiang
Frontiers in Microbiology.2017;[Epub] CrossRef
Stable Carbon Isotope Composition of the Lipids in Natural Ophiocordyceps sinensis from Major Habitats in China and Its Substitutes
Lian-Xian Guo, Xiao-Ming Xu, Yue-Hui Hong, Yan Li, Jiang-Hai Wang
Molecules.2017; 22(9): 1567. CrossRef
Potential molecular mechanisms for fruiting body formation of Cordyceps illustrated in the case ofCordyceps sinensis
Kun Feng, Lan-ying Wang, Dong-jiang Liao, Xin-peng Lu, De-jun Hu, Xiao Liang, Jing Zhao, Zi-yao Mo, Shao-ping Li
Mycology.2017; 8(4): 231. CrossRef
Collecting Ophiocordyceps sinensis: an emerging livelihood strategy in the Garhwal, Indian Himalaya
Laura Caplins, Sarah J. Halvorson
Journal of Mountain Science.2017; 14(2): 390. CrossRef
Extraction, characterization and antioxidant activity of mycelial polysaccharides from Paecilomyces hepiali HN1
Zhongwei Wu, Mingxia Zhang, Minhao Xie, Zhuqing Dai, Xiaoqing Wang, Bing Hu, Hong Ye, Xiaoxiong Zeng
Carbohydrate Polymers.2016; 137: 541. CrossRef
Cordyceps collected from Bhutan, an appropriate alternative of Cordyceps sinensis
Ding-Tao Wu, Guang-Ping Lv, Jian Zheng, Qian Li, Shuang-Cheng Ma, Shao-Ping Li, Jing Zhao
Scientific Reports.2016;[Epub] CrossRef
Laboratory Rearing ofThitarodes armoricanusandThitarodes jianchuanensis(Lepidoptera: Hepialidae), Hosts of the Chinese Medicinal FungusOphiocordyceps sinensis(Hypocreales: Ophiocordycipitaceae)
Zui Tao, Li Cao, Yi Zhang, Yunshou Ye, Richou Han
Journal of Economic Entomology.2016; 109(1): 176. CrossRef
Morphological Observations and Fatty Acid Composition of Indoor-Cultivated Cordyceps sinensis at a High-Altitude Laboratory on Sejila Mountain, Tibet
Lian-Xian Guo, Xiao-Ming Xu, Fu-Rui Liang, Jian-Ping Yuan, Juan Peng, Chou-Fei Wu, Jiang-Hai Wang, Rita Grosch
PLOS ONE.2015; 10(5): e0126095. CrossRef
Metabolic characterization of natural and cultured Ophicordyceps sinensis from different origins by 1H NMR spectroscopy
Jianshuang Zhang, Xin Zhong, Shaosong Li, Guren Zhang, Xin Liu
Journal of Pharmaceutical and Biomedical Analysis.2015; 115: 395. CrossRef
Bacterial diversity in native habitats of the medicinal fungus Ophiocordyceps sinensis on Tibetan Plateau as determined using Illumina sequencing data
Rui-Heng Yang, Xiao-Liang Wang, Jin-He Su, Yi Li, Si-Ping Jiang, Fei Gu, Yi-Jian Yao
FEMS Microbiology Letters.2015;[Epub] CrossRef
Complete mitochondrial genome of the medicinal fungus Ophiocordyceps sinensis
Yi Li, Xiao-Di Hu, Rui-Heng Yang, Tom Hsiang, Ke Wang, De-Quan Liang, Fan Liang, De-Ming Cao, Fan Zhou, Ge Wen, Yi-Jian Yao
Scientific Reports.2015;[Epub] CrossRef
Quantitative assessment of the ecological impact of Chinese cordyceps collection in the typical production areas
Yanda Xu, Fen Li, Cui Xu, Shanghua Luo, Shijun Chao, Yang Guo, Chengcheng Liu, Linbo Zhang
Écoscience.2015; 22(2-4): 167. CrossRef
Impact of Climate Change on Potential Distribution of Chinese Caterpillar Fungus (Ophiocordyceps sinensis) in Nepal Himalaya
Uttam Babu Shrestha, Kamaljit S. Bawa, Helge Thorsten Lumbsch
PLoS ONE.2014; 9(9): e106405. CrossRef
Transcriptome analysis of the Ophiocordyceps sinensis fruiting body reveals putative genes involved in fruiting body development and cordycepin biosynthesis
Li Xiang, Ying Li, Yingjie Zhu, Hongmei Luo, Chunfang Li, Xiaolan Xu, Chao Sun, Jingyuan Song, Linchun Shi, Liu He, Wei Sun, Shilin Chen
Genomics.2014; 103(1): 154. CrossRef
Advances in research of the artificial cultivation ofOphiocordyceps sinensisin China
Xuan-Wei Zhou, Lin-Jun Li, En-Wei Tian
Critical Reviews in Biotechnology.2014; 34(3): 233. CrossRef
Detection of Ophiocordyceps sinensis in the roots of plants in alpine meadows by nested-touchdown polymerase chain reaction
Xin Zhong, Qing-yun Peng, Shao-Song Li, Hai Chen, Hong-Xia Sun, Gu-Ren Zhang, Xin Liu
Fungal Biology.2014; 118(4): 359. CrossRef
Chasing Chinese Caterpillar Fungus (Ophiocordyceps sinensis) Harvesters in the Himalayas: Harvesting Practice and Its Conservation Implications in Western Nepal
Uttam Babu Shrestha, Sujata Shrestha, Shivaraj Ghimire, Kamal Nepali, Bharat Babu Shrestha
Society & Natural Resources.2014; 27(12): 1242. CrossRef
Recent advances in Cordyceps sinensis polysaccharides: Mycelial fermentation, isolation, structure, and bioactivities: A review
Jing-Kun Yan, Wen-Qiang Wang, Jian-Yong Wu
Journal of Functional Foods.2014; 6: 33. CrossRef
Evaluation of nutritional and physical stress conditions during vegetative growth on conidial production and germination inOphiocordyceps sinensis
Shu-Yu Ren, Yi-Jian Yao
FEMS Microbiology Letters.2013; 346(1): 29. CrossRef
A real-time qPCR assay to quantify Ophiocordyceps sinensis biomass in Thitarodes larvae
Wei Lei, Shaosong Li, Qingyun Peng, Guren Zhang, Xin Liu
Journal of Microbiology.2013; 51(2): 229. CrossRef
DNA barcoding the commercial Chinese caterpillar fungus
Li Xiang, Jingyuan Song, Tianyi Xin, Yingjie Zhu, Linchun Shi, Xiaolan Xu, Xiaohui Pang, Hui Yao, Wenjia Li, Shilin Chen
FEMS Microbiology Letters.2013; : n/a. CrossRef
Detection ofOphiocordyceps sinensisin soil by quantitative real-time PCR
Qingyun Peng, Xin Zhong, Wei Lei, Guren Zhang, Xin Liu
Canadian Journal of Microbiology.2013; 59(3): 204. CrossRef
On the reliability of DNA sequences ofOphiocordyceps sinensisin public databases
Shu Zhang, Yong-Jie Zhang, Xing-Zhong Liu, Hong Zhang, Dian-Sheng Liu
Journal of Industrial Microbiology and Biotechnology.2013; 40(3-4): 365. CrossRef
A Systematic Review of the Mysterious Caterpillar Fungus Ophiocordyceps sinensis in DongChongXiaCao (冬蟲夏草 Dōng Chóng Xià Cǎo) and Related Bioactive Ingredients
Hui-Chen Lo, Chienyan Hsieh, Fang-Yi Lin, Tai-Hao Hsu
Journal of Traditional and Complementary Medicine.2013; 3(1): 16. CrossRef
Systematic analyses of Ophiocordyceps lanpingensis sp. nov., a new species of Ophiocordyceps in China
Zi-Hong Chen, Yong-Dong Dai, Hong Yu, Kun Yang, Zhong-Lin Yang, Feng Yuan, Wen-Bo Zeng
Microbiological Research.2013; 168(8): 525. CrossRef
Development of conventional and nested PCR assays for the detection of Ophiocordyceps sinensis
Guo‐Sheng Jin, Xiao‐Liang Wang, Yi Li, Wen‐Jing Wang, Rui‐Heng Yang, Shu‐Yu Ren, Yi‐Jian Yao
Journal of Basic Microbiology.2013; 53(4): 340. CrossRef

NOTE] Mitochondrial Phylogeny Reveals Intraspecific Variation in Peronospora effusa, the Spinach Downy Mildew Pathogen: Young-Joon Choi , Marco Thines , Jae-Gu Han , Hyeon-Dong Shin; J. Microbiol. 2011;49(6):1039-1043. Published online December 28, 2011; DOI: https://doi.org/10.1007/s12275-011-1069-2

25 View
0 Download
8 Scopus

Abstract: Since about two hundred years, downy mildew caused by Peronospora effusa is probably the most economically important disease of spinach (Spinacia oleracea). However, there is no information on the global phylogeographic structure of the pathogen and thus it is unclear whether a single genotype occurs worldwide
or whether some local genetic variation exists. To investigate the genetic variability of this pathogen, a sequence analysis of two partial mitochondrial DNA genes, cox2 and nad1, was carried out. Thirty-three specimens of Peronospora effusa from four continents were analyzed, including samples from Australia, China, Japan, Korea, Mexico, Russia, Sweden, and the USA. Despite the potential anthropogenic admixture of genotypes, a phylogeographic pattern was observed, which corresponds to two major groups, an Asian/Oceanian clade and another group, which includes American/European specimens. Notably, two of six Japanese specimens investigated did not belong to the Asian/Oceanian clade, but were identical to three of the specimens from the USA, suggestive of a recent introduction from the USA to Japan. As similar introduction events may be occurring as a result of the globalised trade with plant and seed material, a better knowledge of the phylogeographic distribution of pathogens is highly warranted for food security purposes.

Genetic Diversity and Structure of Cordyceps sinensis Populations from Extensive Geographical Regions in China as Revealed by Inter-Simple Sequence Repeat Markers: Hong-Hui Liang , Zhou Cheng , Xiao-Ling Yang , Shan Li , Zu-Quan Ding , Tong-Shui Zhou , Wen-Ju Zhang , Jia-Kuan Chen; J. Microbiol. 2008;46(5):549-556. Published online October 31, 2008; DOI: https://doi.org/10.1007/s12275-008-0107-1

37 View
0 Download
41 Scopus

Abstract: Cordyceps sinensis is one of the most valuable medicinal caterpillar fungi native to China. However, its productivity is extremely limited and the species is becoming endangered. The genetic diversity of eighteen C. sinensis populations across its major distributing regions in China was evaluated by inter-simple sequence repeat (ISSR) markers. A total of 141 markers were produced in 180 individuals from the 18 populations, of which 99.3% were polymorphic. The low average of Shannon (0.104) and Nei index (0.07) of the 18 populations indicates that there are little genetic variations within populations. For all 18 populations, estimates of total gene diversity (HT), gene diversity within populations (HS), coefficient of genetic differentiation (GST), and gene flow (Nm) were 0.170, 0.071, 0.583, and 0.357, respectively. This pattern suggests that the genetic diversity of C. sinensis is low and most of the ISSR variations are found among populations with little gene exchange. The 18 populations are divided into five groups based on the genetic distance and the grouping pattern matches with the geographic distribution along the latitudinal gradient. The five groups show obvious difference in the GST and Nm values. Therefore, the genetic diversification of C. sinensis populations may be determined by geographic isolation and the combined effects of life history characters and the interaction with host insect species. The information illustrated by this study is useful for selecting in situ conservation sites of C. sinensis.

Characteristics of HIV-Tat Protein Transduction Domain: Jong-Sub Yoon , Yong-Tae Jung , Seong-Karp Hong , Sun-Hwa Kim , Min-Chul Shin , Dong-Gun Lee , Wan-Shik Shin , Woo-Sung Min , Soon-Young Paik; J. Microbiol. 2004;42(4):328-335.; DOI: https://doi.org/2103 [pii]

38 View
0 Download

Abstract: The human immunodeficiency virus type 1 (HIV-1) Tat protein transduction domain (PTD), which contains rich arginine and lysine residues, is responsible for the highly efficient transduction of protein through the plasma membrane. In addition, it can be secreted from infected cells and has the ability to enter neighboring cells. When the PTD of Tat is fused to proteins and exogenously added to cells, the fusion protein can cross plasma membranes. Recent reports indicate that the endogenously expressed Tat fusion protein can demonstrate biodistribution of several proteins. However, intercellular transport and protein transduction have not been observed in some studies. Therefore, this study examined the intercellular transport and protein transduction of the Tat protein. The results showed no evidence of intercellular transport (biodistribution) in a cell culture. Instead, the Tat fusion peptides were found to have a significant effect on the transduction and intercellular localization properties. This suggests that the HIV-1 PTD passes through the plasma membrane in one direction.

Introductory Journal Article

[Editorial]Omics-based microbiome analysis in microbial ecology: from sequences to information: Jang-Cheon Cho; J. Microbiol. 2021;59(3):229-232.; DOI: https://doi.org/10.1007/s12275-021-0698-3

48 View
0 Download
5 Web of Science
5 Crossref

Abstract

Microbial ecology is the study of microorganisms present in nature. It particularly focuses on microbial interactions with any biota and with surrounding environments. Microbial ecology is entering its golden age with innovative multi-omics
methods
triggered by next-generation sequencing technologies. However, the extraction of ecologically relevant information from ever-increasing omics data remains one of the most challenging tasks in microbial ecology. This special issue includes 11 review articles that provide an overview of the state of the art of omics-based approaches in the field of microbial ecology, with particular emphasis on the interpretation of omics data, environmental pollution tracking, interactions in microbiomes, and viral ecology.

Citations

Citations to this article as recorded by

Advancing early warning and surveillance for zoonotic diseases under climate change: Interdisciplinary systematic perspectives
Chen-Xi Wang, Le-Shan Xiu, Qin-Qin Hu, Tung-Chun Lee, Jia Liu, Leilei Shi, Xiao-Nong Zhou, Xiao-Kui Guo, Liyuan Hou, Kun Yin
Advances in Climate Change Research.2023; 14(6): 814. CrossRef
Mercury methylation in boreal aquatic ecosystems under oxic conditions and climate change: a review
Juanjo Rodríguez
Frontiers in Marine Science.2023;[Epub] CrossRef
Analyzing Modern Biomolecules: The Revolution of Nucleic-Acid Sequencing – Review
Gabriel Dorado, Sergio Gálvez, Teresa E. Rosales, Víctor F. Vásquez, Pilar Hernández
Biomolecules.2021; 11(8): 1111. CrossRef
Microbial diversity analysis of two full-scale seawater desalination treatment trains provides insights into detrimental biofilm formation
Mircea Podar, Amanda L. May, Weiliang Bai, Kellie Peyton, Dawn M. Klingeman, Cynthia M. Swift, Devan A.F. Linson, Jacques Mathieu, Daniel Siljeström, Ignacio Beneyto, Lauren B. Stadler, Yosef Pinhas, Frank E. Löffler, Pedro J.J. Alvarez, Manish Kumar
Journal of Membrane Science Letters.2021; 1(1): 100001. CrossRef
Removal of PCR inhibitors from soil DNA by chemical flocculation
Michael D Braid, Laura M Daniels, Christopher L Kitts
Journal of Microbiological Methods.2003; 52(3): 389. CrossRef

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

Genetic Variation and Geographic Distribution of Megalocytiviruses: Jun-Young Song , Shin-Ichi Kitamura , Sung-Ju Jung , Toshiaki Miyadai , Shinji Tanaka , Yutaka Fukuda , Seok-Ryel Kim , Myung-Joo Oh; J. Microbiol. 2008;46(1):29-33.; DOI: https://doi.org/10.1007/s12275-007-0184-6

38 View
0 Download
63 Scopus

Abstract: Viruses belonging to the genus Megalocytivirus in the family Iridoviridae have caused mass mortalities in marine and freshwater fish in Asian countries. In this study, partial major capsid protein (MCP) gene of seven Japanese and six Korean megalocytiviruses was sequenced and compared with the known megalocytiviruses to evaluate genetic variation and geographic distribution of the viruses. Comparison of MCP gene nucleotide sequences revealed sequence identity of 92.8% or greater among these 48 isolates. A phylogenetic tree clearly revealed three clusters: genotype I including nine Japanese isolates, thirteen Korean isolates, one Chinese isolates, one Thailand isolate and one South China Sea isolate; genotype II including five freshwater fish isolates in Southeast Asian countries and Australia; and the remaining genotype III mainly consisted of flatfish isolate in Korea and China. This suggests that viruses belonging to the genotype I widely distribute among various fish species in many Asian countries. Conversely, the epidemic viruses belonged to genotype II and III are may be still locally spreading and constrained in their prevalence to the limited host fish species, i.e., genotype II viruses mainly distribute in Southeast Asian countries, whereas genotype III viruses distribute in flatfish species in Korea and China.

The Identification of a Novel Pleurotus ostreatus dsRNA Virus and Determination of the Distribution of Viruses in Mushroom Spores: Yeo Jin Kim , Ji Yeon Kim , Ji Hye Kim , Seon Mee Yoon , Young-Bok Yoo , Se Won Yie; J. Microbiol. 2008;46(1):95-99.; DOI: https://doi.org/10.1007/s12275-007-0171-y

32 View
0 Download
13 Scopus

Abstract: Double-stranded RNAs and virus particles were identified in Pleurotus ostreatus strain Shin-Nong in Korea. Isometric virus particles with a diameter of 33 nm were purified, which are similar to other Pleurotus viruses reported previously. This strain contains 5 dsRNAs, 8.0, 2.5, 2.4, 2.0, and 1.8 kb in size. The virus particles contain 2 dsRNAs, designated RNA-1 (2.5 kb), and RNA-2 (2.4 kb) which is a typical pattern of Partitiviridae. A non-encapsidated dsRNA of about 8.0 kb also was identified. Partial cDNA from RNA-1 was cloned, and sequence analysis revealed that this gene codes for RdRp. The comparison of the sequence from partial cDNA clone showed 35% amino acid homology with the C-terminal end of the RdRp gene of Helicobasidum mompa virus and Rosalinia necatrix virus. Specific primers designed from the partial sequences successfully amplified RT-PCR product from the infected mycelium and a single spore culture. We used these primers to determine the pattern of distribution of viruses in spores. Of the 96 different single spore cultures generated from Shin-Nong strain, a specific RT-PCR product was identified in 25 cultures, indicating that about 26% of basidiospores contain viruses.

Distribution of airborne microorganisms in yellow sands of Korea: Choi, Dae Sung , Park, Yong Keun , Oh, Sang Kon , Yoon, Hee Ju , Kim, Jee Cheon , Seo, Won Jun , Cha, Seung Hee; J. Microbiol. 1997;35(1):1-9.

36 View
0 Download

Abstract: Distribution of airborne microorganisms was determined with two different types of air samplers, the Anderson cascade sampler and the Aerobioscope sampler, in the vicinity of Taejon. The size distribution of particles carrying bacteria and fungi was concurrently measured. The concentration of detected viable airborne particles was greatly varied. It was observed that the number of microbial particles increased in April and October. The most size of particles carrying bacteria was larger than 4.7 um in mean aerodiameter, which made up 69.8% of the total particle fraction. About 63.2% of fungi-carrying particles were smaller than 4.7 um in aerodiameter. The distribution of particles on Yellow Sand Phenomena days was also analyzed. The number of fine particles having mass median aero-diameter from 1.0 to 10.mu.m increased on Yellow Sand Phenomena days to about 6 times that on normal days and the n umber of colony forming unit (CFU/㎥) of airborne bacteria also increased by 4.3 times in April. The results from the Anderson sampler showed that the concentration of bacteria increased greatly on the fraction of fine particles ranging from 0.6 um to 4.7 um in diameter. Unlike the increase in bacterial floraon Yellow Sand Phenomena days, the fungal concentration slightly decreased and showed a normal size distribution pattern. This study suggests that a long-range transmission of bacteria results form bacteria adsorbing onto the fine particles during the Yellow Sand Phenomena.

First
Prev
Page of 1
Next
Last

Search