1
|
Kobayashi H, Tanizawa Y, Sakamoto M, Ohkuma M, Tohno M. Lacrimispora brassicae sp. nov. isolated from fermented cabbage, and proposal of Clostridium indicum Gundawar et al. 2019 and Clostridium methoxybenzovorans Mechichi et al. 1999 as heterotypic synonyms of Lacrimispora amygdalina (Parshina et al. 2003) Haas and Blanchard 2020 and Lacrimispora indolis (McClung and McCoy 1957) Haas and Blanchard 2020, respectively. Int J Syst Evol Microbiol 2024; 74:006456. [PMID: 39016536 PMCID: PMC11316579 DOI: 10.1099/ijsem.0.006456] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Accepted: 07/02/2024] [Indexed: 07/18/2024] Open
Abstract
A Gram-stain-negative, endospore-forming, rod-shaped, indole-producing bacterial strain, designated YZC6T, was isolated from fermented cabbage. Strain YZC6T grew at 10-37 °C, pH 5.5-8.5, and with up to 2 % (w/v) NaCl. The major cellular fatty acids were C16 : 0 and C18 : 1 cis 11 dimethyl acetal. Phylogenetic analysis of the 16S rRNA gene revealed that strain YZC6T belonged to the genus Lacrimispora and was closely related to Lacrimispora aerotolerans DSM 5434T (98.3 % sequence similarity), Lacrimispora saccharolytica WM1T (98.1 %), and Lacrimispora algidixylanolytica SPL73T (98.1 %). The average nucleotide identity based on blast (below 87.8 %) and digital DNA-DNA hybridization (below 36.1 %) values between the novel isolate and its corresponding relatives showed that strain YZC6T could be readily distinguished from its closely related species. Based on genotypic, phenotypic, and chemotaxonomic data, a novel Lacrimispora species, Lacrimispora brassicae sp. nov., was proposed, with YZC6T as the type strain (=MAFF 212518T=JCM 32810T=DSM 112100T). This study also proposed Clostridium indicum Gundawar et al. 2019 as a later heterotypic synonym of Lacrimispora amygdalina (Parshina et al. 2003) Haas and Blanchard 2020 and Clostridium methoxybenzovorans Mechichi et al. 1999 as a later heterotypic synonym of Lacrimispora indolis (McClung and McCpy 1957) Haas and Blanchard 2020.
Collapse
Affiliation(s)
- Hisami Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan
| | - Yasuhiro Tanizawa
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Masanori Tohno
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan
- Research Center of Genetic Resources, National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-8602, Japan
- Innovative Animal Production System, University of Tsukuba, 305-8571 Tsukuba, Japan
| |
Collapse
|
2
|
Li W, Li F, Zhang C, Gao J, Tao Y. Genotypic and Phenotypic Characteristics of Lactic Acid Bacteria Associated with Forage Plants in the Native Grassland of Western Inner Mongolia and Their Application for Alfalfa Silage Fermentation. Animals (Basel) 2024; 14:1394. [PMID: 38791612 PMCID: PMC11117391 DOI: 10.3390/ani14101394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2024] [Revised: 04/24/2024] [Accepted: 05/02/2024] [Indexed: 05/26/2024] Open
Abstract
This study was conducted to investigate the genotypic and phenotypic characteristics of lactic acid bacteria (LAB) associated with forage plants in the native grassland of western Inner Mongolia and to evaluate their effects on alfalfa silage fermentation. Forage plants and their spontaneous fermentation silages were analysed using culture-based techniques for LAB isolation; the phenotypic properties and 16S rDNA and pheS or rpoA gene sequences of the isolates were evaluated; alfalfa was ensiled with four additive combinations: Lactiplantibacillus plantarum subsp. plantarum (GI19), Lact. plantarum subsp. plantarum and Pediococcus pentosaceus (GI19+GI51), GI19 and 20 g/kg fresh matter of sucrose (GI19+S), and GI19+GI51+S, for 60 d. A total of 73 strains belonging to 16 species were isolated. All isolates grew at 5-45 °C and in 3.0% NaCl, and most of them grew in 6.5% NaCl. Enterococcus faecalis and Lact. plantarum were 26.03% and 17.81% of the total isolates, respectively. All additives improved the silage quality, while GI19+S was more effective for alfalfa ensiling with a higher lactic acid content and lower pH, undesirable microorganism counts, and acetic acid and NH3-N contents than remnant additives. In conclusion, the LAB species were diverse, and most of them possessed good cryotolerance and osmotolerance; GI19+S was the optimal inoculant for alfalfa fermentation improvement.
Collapse
Affiliation(s)
- Wenlong Li
- Institute of Grassland Research, Chinese Academy of Agricultural Sciences, Hohhot 010010, China; (W.L.); (F.L.); (C.Z.); (J.G.)
| | - Feng Li
- Institute of Grassland Research, Chinese Academy of Agricultural Sciences, Hohhot 010010, China; (W.L.); (F.L.); (C.Z.); (J.G.)
| | - Chen Zhang
- Institute of Grassland Research, Chinese Academy of Agricultural Sciences, Hohhot 010010, China; (W.L.); (F.L.); (C.Z.); (J.G.)
| | - Jie Gao
- Institute of Grassland Research, Chinese Academy of Agricultural Sciences, Hohhot 010010, China; (W.L.); (F.L.); (C.Z.); (J.G.)
| | - Ya Tao
- Institute of Grassland Research, Chinese Academy of Agricultural Sciences, Hohhot 010010, China; (W.L.); (F.L.); (C.Z.); (J.G.)
- Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Hohhot 010010, China
- National Center of Technology Innovation for Dairy, Hohhot 010090, China
| |
Collapse
|
3
|
Li P, Liao C, Yan L, Zhang C, Chen L, You M, Cheng Q, Chen C. Effects of small-scale silo types and additives on silage fermentation and bacterial community of high moisture alfalfa on the Qinghai-Tibetan Plateau. Anim Feed Sci Technol 2023. [DOI: 10.1016/j.anifeedsci.2023.115594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
|
4
|
Liu M, Wang Y, Wang Z, Bao J, Zhao M, Ge G, Jia Y, Du S. Effects of Isolated LAB on Chemical Composition, Fermentation Quality and Bacterial Community of Stipa grandis Silage. Microorganisms 2022; 10:microorganisms10122463. [PMID: 36557716 PMCID: PMC9787380 DOI: 10.3390/microorganisms10122463] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 12/05/2022] [Accepted: 12/10/2022] [Indexed: 12/15/2022] Open
Abstract
This study aimed to screen and identify lactic acid bacteria (LAB) strains from the Stipa grandis and naturally fermented silage, and assess their effects on the silage quality and bacterial community of Stipa grandis after 60 days of the fermentation process. A total of 38 LAB were isolated, and strains ZX301 and YX34 were identified as Lactiplantibacillus plantarum and Pediococcus pentosaceus using 16S rRNA sequences; they can normally grow at 10−30 °C, with a tolerance of pH and NaCl from 3.5 to 8.0 and 3 to 6.5%, respectively. Subsequently, the two isolated LAB and one commercial additive (Lactiplantibacillus plantarum) were added to Stipa grandis for ensiling for 60 days and recorded as the ZX301, YX34, and P treatments. The addition of LAB was added at 1 × 105 colony-forming unit/g of fresh weight, and the same amount of distilled water was sprayed to serve as a control treatment (CK). Compared to the CK treatment, the ZX301 and YX34 treatments exhibited a positive effect on pH reduction. The water-soluble carbohydrate content was significantly (p < 0.05) increased in ZX301, YX34, and P treatments than in CK treatment. At the genus level, the bacterial community in Stipa grandis silage involves a shift from Pantoea to Lactiplantibacillus. Compared to the CK treatment, the ZX301, YX34, and P treatments significantly (p < 0.05) increase the abundance of Pediococcus and Lactiplantibacillus, respectively. Consequently, the results indicated that the addition of LAB reconstructed microbiota and influenced silage quality. The strain ZX301 could improve the ensiling performance in Stipa grandis silage.
Collapse
Affiliation(s)
- Mingjian Liu
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Yu Wang
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Zhijun Wang
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Jian Bao
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Muqier Zhao
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Gentu Ge
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
| | - Yushan Jia
- Key Laboratory of Forage Cultivation, Processing and High Efficient Utilization, Ministry of Agriculture, China, Key Laboratory of Grassland Resources, Ministry of Education, China, College of Grassland, Resources and Environment, Inner Mongolia Agricultural University, Hohhot 010019, China
- Correspondence: (Y.J.); (S.D.)
| | - Shuai Du
- National Engineering Laboratory of Biological Feed Safety and Pollution Prevention and Control, Key Laboratory of Molecular Nutrition, Ministry of Education, Key Laboratory of Animal Nutrition and Feed, Ministry of Agriculture and Rural Affairs, Key Laboratory of Animal Nutrition and Feed Science of Zhejiang Province, Institute of Feed Science, Zhejiang University, Hangzhou 310058, China
- Correspondence: (Y.J.); (S.D.)
| |
Collapse
|
5
|
Huo W, Zhang Y, Zhang L, Shen C, Chen L, Liu Q, Zhang S, Wang C, Guo G. Effect of lactobacilli inoculation on protein and carbohydrate fractions, ensiling characteristics and bacterial community of alfalfa silage. Front Microbiol 2022; 13:1070175. [PMID: 36545197 PMCID: PMC9760813 DOI: 10.3389/fmicb.2022.1070175] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Accepted: 11/21/2022] [Indexed: 12/12/2022] Open
Abstract
Introduction Alfalfa (Medicago sativa L.) silage is one of the major forages with high protein for ruminants. Methods The objective of this study was to investigate the effects of lactobacilli inoculants on protein and carbohydrate fractions, ensiling characteristics and bacterial community of alfalfa silage. Wilted alfalfa (35% dry matter) was inoculated without (control) or with Lactobacillus coryniformis, Lactobacillus casei, Lactobacillus plantarum, and Lactobacillus pentosus and ensiled for 7, 15, and 60 days. Results and discussion Silage inoculated with L. pentosus was superior to L. coryniformis, L. casei, L. plantarum in improving the fermentation quality of alfalfa silage, as indicated by the lowest ammonia nitrogen content and silage pH during ensiling. There was minor difference in water soluble carbohydrates content among all silages, but L. pentosus inoculants was more efficient at using xylose to produce lactic acid, with lower xylose content and higher lactic acid content than the other inoculants. Compared with the control, L. pentosus inoculants did not affect true protein content of silage, but increased the proportions of buffer soluble protein and acid detergent soluble protein. The L. pentosus inoculants reduced the bacterial diversity In alfalfa silage with lower Shannon, Chao1, and Ace indices, and promoted relative abundance of lactobacillus and decreased the relative abundance of Pediococcus compared with the control. As well as L. pentosus inoculants up-regulated amino acid, carbohydrate, energy, terpenoids, and polypeptides metabolism, and promoted lactic acid fermentation process. In summary, the fermentation quality and nutrient preservation of alfalfa silage were efficiently improved by inoculated with L. pentosus.
Collapse
|
6
|
Liao C, Tang X, Li M, Lu G, Huang X, Li L, Zhang M, Xie Y, Chen C, Li P. Effect of lactic acid bacteria, yeast, and their mixture on the chemical composition, fermentation quality, and bacterial community of cellulase-treated Pennisetum sinese silage. Front Microbiol 2022; 13:1047072. [DOI: 10.3389/fmicb.2022.1047072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2022] [Accepted: 10/05/2022] [Indexed: 11/13/2022] Open
Abstract
The present study investigated the effects of Lentilactobacillus buchneri, Saccharomyces cerevisiae, and a mixture of the two on the cellulose degradation and microbial community of cellulase-treated Pennisetum sinese (CTPS) during biological pretreatment. The CTPS was stored without additives (CK) or with L. buchneri (L), yeast (Y, S. cerevisiae), and their mixture (LY) under anaerobic conditions for 60 days. All inoculants enhanced the anaerobic fermentation of CTPS. In relative to L, inoculations with Y and LY decreased the cellulose level of fermented-CTPS by 8.90 ~ 17.13%. Inoculation with L inhibited the growth of Weissella cibaria during anaerobic storage. However, inoculations with LY increased the relative abundance of the homofermentative bacterium Lactiplantibacillus plantarum by 6.04%. Therefore, inoculating S. cerevisiae reduced the adverse effects of L. buchneri-stimulated fermentation on cellulose degradation by altering the bacterial community during anaerobic storage of P. sinese. This work provides a new insight for the subsequent anaerobic digestion of P. sinese.
Collapse
|
7
|
Tohno M, Tanizawa Y, Sawada H, Sakamoto M, Ohkuma M, Kobayashi H. A novel species of lactic acid bacteria, Ligilactobacillus pabuli sp. nov., isolated from alfalfa silage. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
In this study, we isolated a novel strain of lactic acid bacteria, AF129T, from alfalfa silage prepared locally in Morioka, Iwate, Japan. Polyphasic taxonomy was used to characterize the bacterial strain. The bacterium was rod-shaped, Gram-stain-positive, non-spore-forming and catalase-negative. The strain grew at various temperatures (15–40°C) and pH levels (4.0–8.0). The optimum growth conditions were a temperature of 30°C and a pH of 6.0. AF129T exhibited growth at salt (NaCl) concentrations of up to 6.5 % (w/v). The G+C content of the strain’s genomic DNA was 41.5 %. The major fatty acids were C16 : 0, C18 : 1ω9c, C19 : 0cyclo ω8c and summed feature 8. 16S rRNA gene sequencing revealed that AF129T represents a member of the genus
Ligilactobacillus
and it has higher sequence similarities with
Ligilactobacillus pobuzihii
(98.4 %),
Ligilactobacillus acidipiscis
(97.5 %) and
Ligilactobacillus salitolerans
(97.4 %). The digital DNA–DNA hybridization values for AF129T and phylogenetically related species of the genus
Ligilactobacillus
ranged from 19.8% to 24.1%. The average nucleotide identity of the strain with its closely related taxa was lower than the threshold (95 %–96 %) used for species differentiation. In the light of the above-mentioned physiological, genotypic, chemotaxonomic and phylogenetic evidence, we confirm that AF129T represents a member of the genus
Ligilactobacillus
and constitutes a novel species; we propose the name Ligilactobacillus pabuli sp. nov. for this species. The type strain is AF129T =MAFF 518002T =JCM 34518T=BCRC 81335T.
Collapse
Affiliation(s)
- Masanori Tohno
- Research Center of Genetic Resources, Core Technology Research Headquarters, National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-8602, Japan
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan
| | - Yasuhiro Tanizawa
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Hiroyuki Sawada
- Research Center of Genetic Resources, Core Technology Research Headquarters, National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-8602, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Hisami Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan
| |
Collapse
|
8
|
Cheng Q, Li M, Fan X, Chen Y, Sun H, Xie Y, Zheng Y, Chen C, Li P. Effects of epiphytic and exogenous lactic acid bacteria on fermentation quality and microbial community compositions of paper mulberry silage. Front Microbiol 2022; 13:973500. [PMID: 36090070 PMCID: PMC9453674 DOI: 10.3389/fmicb.2022.973500] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2022] [Accepted: 07/28/2022] [Indexed: 11/16/2022] Open
Abstract
This study aimed to isolate, characterize, and identify lactic acid bacteria (LAB) strains from various sources and evaluate their effects on the nutritional quality, fermentation characteristics, and microbial compositions of paper mulberry (PM) after 60 days of ensiling. Forty-nine LAB strains were isolated from Phalaris arundinacea silage, pickle, and fresh PM leaves; three of these strains (Lactiplantibacillus plantarum, YC1; Levilactobacillus brevis, PC3; and Lactiplantibacillus plantarum, BP17) and one commercial inoculant Gaofuji (GFJ) were subsequently used. Compared with other treatments, PC3 and BP17 increased (P < 0.05) the LAB count and crude protein content and decreased (P < 0.05) the molds and coliform bacteria counts, pH, and ammonia-N content of PM silages. BP17 and PC3 increased the relative Lactiplantibacillus abundance and decreased that of Lelliottia and Cladosporium, improving PM silage quality. Therefore, PC3 and BP17 can improve the fermentation quality of PM silage and could be used as silage starter cultures.
Collapse
Affiliation(s)
- Qiming Cheng
- College of Animal Science, Guizhou University, Guiyang, China
- Sichuan Academy of Grassland Sciences, Chengdu, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Maoya Li
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Xueying Fan
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Yulian Chen
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Hong Sun
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Yixiao Xie
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Yulong Zheng
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Chao Chen
- College of Animal Science, Guizhou University, Guiyang, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
| | - Ping Li
- College of Animal Science, Guizhou University, Guiyang, China
- Sichuan Academy of Grassland Sciences, Chengdu, China
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education, Guizhou University, Guiyang, China
- *Correspondence: Ping Li,
| |
Collapse
|
9
|
Kobayashi H, Tanizawa Y, Yagura M, Sakamoto M, Ohkuma M, Tohno M. Clostridium zeae sp. nov., isolated from corn silage. Int J Syst Evol Microbiol 2021; 71. [PMID: 34748474 DOI: 10.1099/ijsem.0.005088] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A rod-shaped, Gram-stain-negative, strictly anaerobic, catalase-negative and endospore-forming bacterial strain CSC2T was isolated from corn silage preserved in Tochigi, Japan. The strain CSC2T grew at 15-40 °C, at pH 5.0-7.7 and with up to 0.5 % (w/v) NaCl. The main cellular fatty acids were C14 : 0, C16 : 0 and C16 : 0 dimethyl acetal. The cellular polar lipids detected were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidic acid, lysophosphatidylethanolamine, phosphatidylserine, lysophosphatidylcholine and two unidentified polar lipids. Phylogenetic analysis of the 16S rRNA gene showed that strain CSC2T was a member of the genus Clostridium and closely related to Clostridium polyendosporum DSM 57272T (95.6 % gene sequence similarity) and Clostridium fallax ATCC 19400T (95.3 %). The genomic DNA G+C content of strain CSC2T was 31.1 mol% (whole genome analysis). The average nucleotide identity based on blast and digital DNA-DNA hybridization values between strain CSC2T and the type strains of phylogenetically related species were below 71 and 24 %, respectively. On the basis of the genotypic, phenotypic and chemotaxonomic characteristics, it is proposed to designate strain CSC2T as representing Clostridium zeae sp. nov. The type strain is CSC2T (=MAFF212476T=JCM 33766T=DSM 111242T).
Collapse
Affiliation(s)
- Hisami Kobayashi
- Institute of Livestock and Grassland Science, NARO, Nasushiobara, Tochigi 329-2793, Japan
| | - Yasuhiro Tanizawa
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Masaru Yagura
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Masanori Tohno
- Institute of Livestock and Grassland Science, NARO, Nasushiobara, Tochigi 329-2793, Japan
- Research Center of Genetic Resources, Core Technology Research Headquarters, NARO, Tsukuba, Ibaraki, 305-8632, Japan
| |
Collapse
|
10
|
Kobayashi H, Tanizawa Y, Sakamoto M, Ohkuma M, Tohno M. Taxonomic status of the species Clostridium methoxybenzovorans Mechichi et al. 1999. Int J Syst Evol Microbiol 2021; 71. [PMID: 34379581 DOI: 10.1099/ijsem.0.004951] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The taxonomic status of the species Clostridium methoxybenzovorans was assessed. The 16S rRNA gene sequence, whole-genome sequence and phenotypic characterizations suggested that the type strain deposited in the American Type Culture Collection (C. methoxybenzovorans ATCC 700855T) is a member of the species Eubacterium callanderi. Hence, C. methoxybenzovorans ATCC 700855T cannot be used as a reference for taxonomic study. The type strain deposited in the German Collection of Microorganism and Cell Cultures GmbH (DSM 12182T) is no longer listed in its online catalogue. Also, both the 16S rRNA gene and the whole-genome sequences of the original strain SR3T showed high sequence identity with those of Lacrimispora indolis (recently reclassified from Clostridium indolis) as the most closely related species. Analysis of the two genomes showed average nucleotide identity based on blast and digital DNA-DNA hybridization values of 98.3 and 87.9 %, respectively. Based on these results, C. methoxybenzovorans SR3T was considered to be a member of L. indolis.
Collapse
Affiliation(s)
- Hisami Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan
| | - Yasuhiro Tanizawa
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Masanori Tohno
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi 329-2793, Japan.,Research Center of Genetic Resources, Core Technology Research Headquarters, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, 305-8632, Japan
| |
Collapse
|
11
|
Tohno M, Tanizawa Y, Kojima Y, Sakamoto M, Ohkuma M, Kobayashi H. Lactobacillus corticis sp. nov., isolated from hardwood bark. Int J Syst Evol Microbiol 2021; 71. [PMID: 34264810 DOI: 10.1099/ijsem.0.004882] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
During a study on the biodiversity of bacteria that inhabit woody biomass, we isolated a strain coded B40T from hardwood bark used as a compost ingredient in Japan. The strain, characterized as B40T, is a Gram-stain-positive, rod-shaped, non-motile, non-spore-forming and catalase-negative bacterium. This novel isolate showed growth at 30-50 °C, at pH 3.5-7.5 and in the presence of up to 4 % (w/v) NaCl. Its major fatty acids include C16:0, C18:1 ω9c and summed feature 8. The genomic DNA G+C content of strain B40T is 42.2 mol%. Results of 16S rRNA gene sequence-based phylogenetic analysis indicated that strain B40T belongs to the genus Lactobacillus and the closest neighbours of strain B40T are Lactobacillus gigeriorum 202T (95.7 %), Lactobacillus pasteurii CRBIP 24.76T (95.6 %), Lactobacillus psittaci DSM 15354T (95.4 %), Lactobacillus fornicalis TV1018T (95.4 %) and Lactobacillus jensenii ATCC 25258T (95.2 %). The amino acid sequence-based phylogenetic analyses of 489 shared protein-encoding genes showed that the strain forms a phylogenetically independent lineage in the genus Lactobacillus but could not be assigned to any known species. Strain B40T has an average nucleotide identify of <70.2 % and a digital DNA-DNA hybridization value of 19.2 % compared with the strains of other closely related Lactobacillus species. Differential genomic, phenotypic and chemotaxonomic properties, in addition to phylogenetic analyses, indicated that strain B40T represents a novel species of the genus Lactobacillus, for which the name Lactobacillus corticis sp. nov. is proposed. The strain type is B40T (=JCM 32597T=DSM 107967T).
Collapse
Affiliation(s)
- Masanori Tohno
- Research Center of Genetic Resources, Core Technology Research Headquarters, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan.,Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization Nasushiobara, Tochigi, Japan
| | - Yasuhiro Tanizawa
- Department of Informatics, National Institute of Genetics, Mishima, Shizuoka, Japan
| | - Yoichiro Kojima
- Central Region Agricultural Research Center, National Agriculture and Food Research Organization, Nasushiobara, Tochigi, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Research Center, Tsukuba, Ibaraki, Japan
| | - Hisami Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization Nasushiobara, Tochigi, Japan
| |
Collapse
|
12
|
Ali N, Wang S, Zhao J, Dong Z, Li J, Nazar M, Shao T. Microbial diversity and fermentation profile of red clover silage inoculated with reconstituted indigenous and exogenous epiphytic microbiota. BIORESOURCE TECHNOLOGY 2020; 314:123606. [PMID: 32629380 DOI: 10.1016/j.biortech.2020.123606] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 05/28/2020] [Accepted: 05/29/2020] [Indexed: 06/11/2023]
Abstract
The study investigated the effects of transplantation and reconstitution of indigenous and exogenous epiphytic microbiota on the fermentation quality and microbial community of red clover silage. Sterile red clover was inoculated with distilled water (RC0), extracted epiphytic microbiota of red clover (RC), maize (MZ), and sorghum (SG). RC inoculation rapidly decreased pH at the onset of ensiling. The LA concentration and ratio of LA/AA were higher in RC silage during entire ensiling while MZ silage during late phase of ensiling. Pediococcus was dominant in RC early silage, while Lactobacillus was abundant in MZ final silage. The SG terminal silage had higher pH (>4.50) and dominated by Sphingomonas, Enterobacter, and Novosphingobium. RC and MZ microbiota were beneficial in enhancing fermentation quality and microbial community in red clover silage. Transplantation and reconstitution of epiphytic microbiota can be a successful method to assess the effective and eco-friendly additive for the targeted crop.
Collapse
Affiliation(s)
- Niaz Ali
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Siran Wang
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Jie Zhao
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Zhihao Dong
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Junfeng Li
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Mudasir Nazar
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Tao Shao
- Institute of Ensiling and Processing of Grass, College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China.
| |
Collapse
|
13
|
Novel lactic acid bacteria strains enhance the conservation of elephant grass silage cv. BRS Capiaçu. Anim Feed Sci Technol 2020. [DOI: 10.1016/j.anifeedsci.2020.114472] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
|
14
|
Bukhari SA, Salman M, Numan M, Javed MR, Zubair M, Mustafa G. Characterization of antifungal metabolites produced by Lactobacillus plantarum and Lactobacillus coryniformis isolated from rice rinsed water. Mol Biol Rep 2020; 47:1871-1881. [PMID: 32006197 DOI: 10.1007/s11033-020-05281-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2019] [Accepted: 01/24/2020] [Indexed: 11/29/2022]
Abstract
A recent spike in demand for chemical preservative free food has derived the scientific community to develop natural ways of food preservation. Therefore, bio-preservation could be considered as the great alternative over chemical ones owing to its potential to increase shelf-life and nutritional values of foodstuffs. In the present study, lactic acid producing bacterial species were isolated from rice rinsed water and identified by 16S rRNA gene sequencing as Lactobacillus plantarum BCH-1 (KX388380) and Lactobacillus coryniformis BCH-4 (KX388387). Antifungal metabolites from both Lactobacillus species were extracted by polarity-based solvents in which ethyl acetate showed remarkable antifungal activity against Aspergillus flavus and Aspergillus fumigatus by disc diffusion assay. Different organic acids and fatty acids have been identified by reversed-phase high-performance liquid chromatography (RP-HPLC) and gas chromatography-mass spectrometry (GC-MS) analysis, respectively. Lactic acid and citric acid were the major organic acids found in ethyl acetate fractions of L. plantarum and L. coryniformis, respectively. Similarly, 9,12-otadecadienoic acid (Z,Z)-methyl ester and hexadecanoic acid, methyl ester were the major fatty acids found in n-hexane fractions of L. plantarum and L. coryniformis respectively. Moreover, the isolation of novel antifungal metabolites from locally isolated Lactobacillus species was focused and it was revealed that organic acids are important contributors towards antifungal potential. A novel fatty acid (i.e. 12-hydroxydodecanoic acid) has also been explored and found as potential metabolite against filamentous fungi. Conclusively, various metabolites isolated from non-dairy source showed antifungal activity especially against Aspergillus species. Hence, these metabolites have been considered as a good choice for bio-preservation.
Collapse
Affiliation(s)
| | - Mahwish Salman
- Department of Biochemistry, Government College University, Faisalabad, Pakistan
| | - Muhammad Numan
- Department of Biochemistry, Government College University, Faisalabad, Pakistan
| | - Muhammad Rizwan Javed
- Department of Bioinformatics and Biotechnology, Government College University, Faisalabad, Pakistan
| | - Muhammad Zubair
- Department of Chemistry, Faculty of Sciences, University of Gujrat, Gujrat, Pakistan
| | - Ghulam Mustafa
- Department of Biochemistry, Government College University, Faisalabad, Pakistan.
| |
Collapse
|
15
|
Yan Y, Li X, Guan H, Huang L, Ma X, Peng Y, Li Z, Nie G, Zhou J, Yang W, Cai Y, Zhang X. Microbial community and fermentation characteristic of Italian ryegrass silage prepared with corn stover and lactic acid bacteria. BIORESOURCE TECHNOLOGY 2019; 279:166-173. [PMID: 30721817 DOI: 10.1016/j.biortech.2019.01.107] [Citation(s) in RCA: 117] [Impact Index Per Article: 23.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2018] [Revised: 01/21/2019] [Accepted: 01/22/2019] [Indexed: 06/09/2023]
Abstract
The bacterial community determined via PacBio single molecule, real-time sequencing technology (SMRT) and the fermentation characteristics of Italian ryegrass (IR, 82% moisture) silage prepared with corn stover (CS) were investigated. A selected strain of Lactobacillus plantarum (L694) and a commercial inoculant stain of Lactobacillus plantarum (LP) were used as additives. Lactic acid bacteria (LAB) effectively improved silage quality. After fermentation, Lactobacillus plantarum was the dominant species in IR + LP and IR + L694 treatments, which led to higher (P < 0.05) lactic acid and lower (P < 0.05) butyric acid production. Lactobacillus plantarum, Lactobacillus hammesii, Lactobacillus brevis, and Lactobacillus coryniformis were abundantly present in IR + CS + LP and IR + CS + L694 treatments, and acetic acid contents of these were higher (P < 0.05) than those of other silages. This study demonstrated that addition of CS and LAB can change the microbial community and influence the silage fermentation of IR, and PacBio SMRT reveals more specific microbial information.
Collapse
Affiliation(s)
- Yanhong Yan
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Xiaomei Li
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Hao Guan
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Linkai Huang
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Xiao Ma
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Yan Peng
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Zhou Li
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Gang Nie
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Jiqiong Zhou
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China
| | - Wenyu Yang
- College of Agronmy, Sichuan Agricultural University, Wenjiang, Sichuan 611130, China
| | - Yimin Cai
- Japan International Research Center for Agricultural Science (JIRCAS), Tsukuba, Ibaraki 305-8686, Japan.
| | - Xinquan Zhang
- Animal Science and Technology College, Sichuan Agricultural University, Chengdu 610000, China.
| |
Collapse
|
16
|
Reclassification of Paenibacillus thermophilus Zhou et al. 2013 as a later heterotypic synonym of Paenibacillus macerans (Schardinger 1905) Ash et al. 1994. Int J Syst Evol Microbiol 2019; 69:417-421. [DOI: 10.1099/ijsem.0.003160] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
|
17
|
Kobayashi H, Nakasato T, Sakamoto M, Ohtani Y, Terada F, Sakai K, Ohkuma M, Tohno M. Clostridium pabulibutyricum sp. nov., a butyric-acid-producing organism isolated from high-moisture grass silage. Int J Syst Evol Microbiol 2017; 67:4974-4978. [DOI: 10.1099/ijsem.0.002387] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Affiliation(s)
- Hisami Kobayashi
- Institute of Livestock and Grassland Science, NARO, Nasushiobara, Tochigi 329-2793, Japan
| | - Takuya Nakasato
- Mito Research Center, Meiji Feed Co., Ltd, Wakamiya, Ibaraki 311-3123, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
- PRIME, Japan Agency for Medical Research and Development (AMED), Tsukuba, Ibaraki 305-0074, Japan
| | - Yoshihisa Ohtani
- Mito Research Center, Meiji Feed Co., Ltd, Wakamiya, Ibaraki 311-3123, Japan
| | - Fuminori Terada
- Mito Research Center, Meiji Feed Co., Ltd, Wakamiya, Ibaraki 311-3123, Japan
- Graduate School of Agricultural Science, Tohoku University, Sendai, Miyagi 980-0845, Japan
| | - Ken Sakai
- Mito Research Center, Meiji Feed Co., Ltd, Wakamiya, Ibaraki 311-3123, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Masanori Tohno
- Institute of Livestock and Grassland Science, NARO, Nasushiobara, Tochigi 329-2793, Japan
| |
Collapse
|
18
|
Ma Q, Fu Y, Sun H, Huang Y, Li L, Yu Q, Dinnyes A, Sun Q. Antimicrobial resistance of Lactobacillus spp. from fermented foods and human gut. Lebensm Wiss Technol 2017. [DOI: 10.1016/j.lwt.2017.07.059] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
19
|
Tohno M, Tanizawa Y, Irisawa T, Masuda T, Sakamoto M, Arita M, Ohkuma M, Kobayashi H. Lactobacillus silagincola sp. nov. and Lactobacillus pentosiphilus sp. nov., isolated from silage. Int J Syst Evol Microbiol 2017; 67:3639-3644. [DOI: 10.1099/ijsem.0.002196] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Masanori Tohno
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi, 329-2793, Japan
| | - Yasuhiro Tanizawa
- Center for Information Biology, National Institute of Genetics, Mishima, Shizuoka, 411-8540, Japan
| | - Tomohiro Irisawa
- Department of Animal Science, Tokyo University of Agriculture, Atsugi, Kanagawa, 243-0034, Japan
| | - Takaharu Masuda
- Animal Industry Research Institute, Iwate Agricultural Research Center, Morioka, Iwate, 028-2711, Japan
| | - Mitsuo Sakamoto
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
- PRIME, Japan Agency for Medical Research and Development (AMED), Tsukuba, Ibaraki 305-0074, Japan
| | - Masanori Arita
- Center for Information Biology, National Institute of Genetics, Mishima, Shizuoka, 411-8540, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Hisami Kobayashi
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara, Tochigi, 329-2793, Japan
| |
Collapse
|
20
|
Ricci A, Allende A, Bolton D, Chemaly M, Davies R, Girones R, Herman L, Koutsoumanis K, Lindqvist R, Nørrung B, Robertson L, Ru G, Sanaa M, Simmons M, Skandamis P, Snary E, Speybroeck N, Ter Kuile B, Threlfall J, Wahlström H, Cocconcelli PS, Klein G, Prieto Maradona M, Querol A, Peixe L, Suarez JE, Sundh I, Vlak JM, Aguilera-Gómez M, Barizzone F, Brozzi R, Correia S, Heng L, Istace F, Lythgo C, Fernández Escámez PS. Scientific Opinion on the update of the list of QPS-recommended biological agents intentionally added to food or feed as notified to EFSA. EFSA J 2017; 15:e04664. [PMID: 32625421 PMCID: PMC7010101 DOI: 10.2903/j.efsa.2017.4664] [Citation(s) in RCA: 87] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
EFSA is requested to assess the safety of a broad range of biological agents in the context of notification for market authorisation as sources of food and feed additives, food enzymes and plant protection products. The qualified presumption of safety (QPS) assessment was developed to provide a harmonised generic pre-assessment to support safety risk assessments performed by EFSA's scientific Panels. The safety of unambiguously defined biological agents (at the highest taxonomic unit appropriate for the purpose for which an application is intended), and the completeness of the body of knowledge are assessed. Identified safety concerns for a taxonomic unit are, where possible and reasonable in number, reflected as 'qualifications' in connection with a recommendation for a QPS status. The list of QPS recommended biological agents was reviewed and updated in the current opinion and therefore becomes the valid list. The 2016 update reviews previously assessed microorganisms including bacteria, yeasts and viruses used for plant protection purposes following an Extensive Literature Search strategy. The taxonomic units related to the new notifications received since the 2013 QPS opinion, were periodically evaluated for a QPS status and the results published as Statements of the BIOHAZ Panel. Carnobacterium divergens, Lactobacillus diolivorans, Microbacterium imperiale, Pasteuria nishizawae, Pediococcus parvulus, Bacillus flexus, Bacillus smithii, Xanthomonas campestris and Candida cylindracea were recommended for the QPS list. All taxonomic units previously recommended for the 2013 QPS list had their status reconfirmed as well their qualifications with the exception of Pasteuria nishizawae for which the qualification was removed. The exclusion of filamentous fungi and enterococci from the QPS evaluations was reconsidered but monitoring will be maintained and the status will be re-evaluated in the next QPS Opinion update. Evaluation of bacteriophages should remain as a case-by-case procedure and should not be considered for QPS status.
Collapse
|
21
|
Tohno M, Sakamoto M, Ohkuma M, Tajima K. Paenibacillus silagei sp. nov. isolated from corn silage. Int J Syst Evol Microbiol 2016; 66:3873-3877. [DOI: 10.1099/ijsem.0.001279] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Masanori Tohno
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Nasushiobara 329-2793, Japan
| | - Mitsuo Sakamoto
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
22
|
Update of the list of QPS‐recommended biological agents intentionally added to food or feed as notified to EFSA 4: suitability of taxonomic units notified to EFSA until March 2016. EFSA J 2016. [DOI: 10.2903/j.efsa.2016.4522] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
|
23
|
Castelain M, Duviau MP, Canette A, Schmitz P, Loubière P, Cocaign-Bousquet M, Piard JC, Mercier-Bonin M. The Nanomechanical Properties of Lactococcus lactis Pili Are Conditioned by the Polymerized Backbone Pilin. PLoS One 2016; 11:e0152053. [PMID: 27010408 PMCID: PMC4806873 DOI: 10.1371/journal.pone.0152053] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Accepted: 03/08/2016] [Indexed: 12/16/2022] Open
Abstract
Pili produced by Lactococcus lactis subsp. lactis are putative linear structures consisting of repetitive subunits of the major pilin PilB that forms the backbone, pilin PilA situated at the distal end of the pilus, and an anchoring pilin PilC that tethers the pilus to the peptidoglycan. We determined the nanomechanical properties of pili using optical-tweezers force spectroscopy. Single pili were exposed to optical forces that yielded force-versus-extension spectra fitted using the Worm-Like Chain model. Native pili subjected to a force of 0–200 pN exhibit an inextensible, but highly flexible ultrastructure, reflected by their short persistence length. We tested a panel of derived strains to understand the functional role of the different pilins. First, we found that both the major pilin PilB and sortase C organize the backbone into a full-length organelle and dictate the nanomechanical properties of the pili. Second, we found that both PilA tip pilin and PilC anchoring pilin were not essential for the nanomechanical properties of pili. However, PilC maintains the pilus on the bacterial surface and may play a crucial role in the adhesion- and biofilm-forming properties of L. lactis.
Collapse
Affiliation(s)
- Mickaël Castelain
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
- * E-mail:
| | - Marie-Pierre Duviau
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
| | - Alexis Canette
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Philippe Schmitz
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
| | - Pascal Loubière
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
| | - Muriel Cocaign-Bousquet
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
| | - Jean-Christophe Piard
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Muriel Mercier-Bonin
- Université de Toulouse, INSA, UPS, INP, LISBP, 135 Avenue de Rangueil, F-31077, Toulouse, France
- INRA, UMR792 Ingénierie des Systèmes Biologiques et des Procédés, F-31400, Toulouse, France
- CNRS, UMR5504, F-31400, Toulouse, France
| |
Collapse
|
24
|
Tohno M, Kitahara M, Irisawa T, Ohmori H, Masuda T, Ohkuma M, Tajima K. Lactobacillus mixtipabuli sp. nov. isolated from total mixed ration silage. Int J Syst Evol Microbiol 2015; 65:1981-1985. [DOI: 10.1099/ijs.0.000204] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Using a polyphasic taxonomic approach, we investigated three bacterial strains – IWT30T, IWT8 and IWT75 – isolated from total mixed ration silage prepared in Hachimantai, Iwate, Japan. The isolates comprised Gram-stain positive, non-motile, non-spore-forming, catalase-negative, rod-shaped bacteria. Good growth occurred at 15–45 °C and at pH 4.0–7.5. Their major cellular fatty acids were C18:1ω9c and C19:1 cyclo 9,10.The G+C content of genomic DNA of strain IWT30T was 44.6 mol%. Comparative 16S rRNA gene sequence analysis showed that these novel strains belonged to the genus Lactobacillus. These strains shared 100 % 16S rRNA gene sequence similarity and were most closely related to the type strains of Lactobacillus silagei, Lactobacillus odoratitofui, Lactobacillus similis, Lactobacillus collinoides, Lactobacillus paracollinoides and Lactobacillus kimchicus, with sequence similarity values of 99.5, 98.8, 98.7, 97.8, 97.8 and 96.8 %, respectively. The level of DNA–DNA relatedness between these strains and their closest phylogenetic neighbours was less than 30 %. On the basis of additional phylogenetic analysis of pheS and rpoA gene sequences and phenotypic and chemotaxonomic characteristics, we conclude that these three strains represent a novel species of the genus Lactobacillus, for which we propose the name Lactobacillus mixtipabuli sp. nov. The type strain is IWT30T ( = JCM 19805T = DSM 28580T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki, 305-0074, Japan
| | - Tomohiro Irisawa
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki, 305-0074, Japan
| | - Hideyuki Ohmori
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki, 305-0901, Japan
| | - Takaharu Masuda
- Iwate Agricultural Research Center Animal Industry research Institute, Morioka 028-2711, Japan
- The United Graduate School of Agricultural Sciences, Iwate University, Morioka 020-8550, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki, 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki, 305-0901, Japan
| |
Collapse
|
25
|
Li D, Ni K, Pang H, Wang Y, Cai Y, Jin Q. Identification and antimicrobial activity detection of lactic Acid bacteria isolated from corn stover silage. ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES 2015; 28:620-31. [PMID: 25924957 PMCID: PMC4412991 DOI: 10.5713/ajas.14.0439] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/12/2014] [Revised: 08/06/2014] [Accepted: 11/04/2014] [Indexed: 11/27/2022]
Abstract
A total of 59 lactic acid bacteria (LAB) strains were isolated from corn stover silage. According to phenotypic and chemotaxonomic characteristics, 16S ribosomal DNA (rDNA) sequences and recA gene polymerase chain reaction amplification, these LAB isolates were identified as five species: Lactobacillus (L.) plantarum subsp. plantarum, Pediococcus pentosaceus, Enterococcus mundtii, Weissella cibaria and Leuconostoc pseudomesenteroides, respectively. Those strains were also screened for antimicrobial activity using a dual-culture agar plate assay. Based on excluding the effects of organic acids and hydrogen peroxide, two L. plantarum subsp. plantarum strains ZZU 203 and 204, which strongly inhibited Salmonella enterica ATCC 43971T, Micrococcus luteus ATCC 4698T and Escherichia coli ATCC 11775T were selected for further research on sensitivity of the antimicrobial substance to heat, pH and protease. Cell-free culture supernatants of the two strains exhibited strong heat stability (60 min at 100°C), but the antimicrobial activity was eliminated after treatment at 121°C for 15 min. The antimicrobial substance remained active under acidic condition (pH 2.0 to 6.0), but became inactive under neutral and alkaline condition (pH 7.0 to 9.0). In addition, the antimicrobial activities of these two strains decreased remarkably after digestion by protease K. These results preliminarily suggest that the desirable antimicrobial activity of strains ZZU 203 and 204 is the result of the production of a bacteriocin-like substance, and these two strains with antimicrobial activity could be used as silage additives to inhibit proliferation of unwanted microorganism during ensiling and preserve nutrients of silage. The nature of the antimicrobial substances is being investigated in our laboratory.
Collapse
Affiliation(s)
- Dongxia Li
- Henan Provincial Key Laboratory of Ion Beam Bio-engineering, Zhengzhou University, Zhengzhou 450052, China
| | - Kuikui Ni
- Henan Provincial Key Laboratory of Ion Beam Bio-engineering, Zhengzhou University, Zhengzhou 450052, China
| | - Huili Pang
- Henan Provincial Key Laboratory of Ion Beam Bio-engineering, Zhengzhou University, Zhengzhou 450052, China
| | - Yanping Wang
- Henan Provincial Key Laboratory of Ion Beam Bio-engineering, Zhengzhou University, Zhengzhou 450052, China
| | - Yimin Cai
- Animal Physiology and Nutrition Division, National Institute of Livestock and Grassland Science, Tsukuba 305-0901, Japan
| | - Qingsheng Jin
- Institute of Crops and Utilization of Nuclear Technology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| |
Collapse
|
26
|
Abrunhosa L, Inês A, Rodrigues AI, Guimarães A, Pereira VL, Parpot P, Mendes-Faia A, Venâncio A. Biodegradation of ochratoxin A by Pediococcus parvulus isolated from Douro wines. Int J Food Microbiol 2014; 188:45-52. [DOI: 10.1016/j.ijfoodmicro.2014.07.019] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2014] [Revised: 07/15/2014] [Accepted: 07/16/2014] [Indexed: 10/25/2022]
|
27
|
Zhang Q, Li X, Zhao M, Yu Z. Isolating and evaluating lactic acid bacteria strains for effectiveness of Leymus chinensis
silage fermentation. Lett Appl Microbiol 2014; 59:391-7. [DOI: 10.1111/lam.12291] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2014] [Revised: 05/11/2014] [Accepted: 05/27/2014] [Indexed: 11/24/2022]
Affiliation(s)
- Q. Zhang
- College of Animal Science and Technology; China Agricultural University; Beijing China
| | - X.J. Li
- College of Animal Science and Technology; China Agricultural University; Beijing China
| | - M.M. Zhao
- College of Animal Science and Technology; China Agricultural University; Beijing China
| | - Z. Yu
- College of Animal Science and Technology; China Agricultural University; Beijing China
| |
Collapse
|
28
|
Aerococcus vaginalis sp. nov., isolated from the vaginal mucosa of a beef cow, and emended descriptions of Aerococcus suis, Aerococcus viridans, Aerococcus urinaeequi, Aerococcus urinaehominis, Aerococcus urinae, Aerococcus christensenii and Aerococcus sanguinicola. Int J Syst Evol Microbiol 2014; 64:1229-1236. [DOI: 10.1099/ijs.0.058081-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A gram-stain-positive, facultatively anaerobic, non-spore-forming, catalase-negative, coccoid-shaped bacterial strain, designated BV2T, was isolated from the vaginal mucosa of a beef cow in Japan. Phylogenetic analysis showed that the isolate shared high 16S rRNA gene sequence similarity (92.9 %) with
Aerococcus suis
1821/02T and low similarity (<92.7 %) with any other recognized species of the genus
Aerococcus
. The DNA G+C content was 44.7 mol%, which is within the range observed among species of the genus
Aerococcus
(37.5–48.4 mol%). The major cellular fatty acid was C18 : 1ω9c, similar to other type strains of species of the genus
Aerococcus
. The results of genotypic, phenotypic and chemotaxonomic analyses as well as the low degree of DNA–DNA relatedness with all recognized members of the genus
Aerococcus
indicate that strain BV2T represents a novel species of the genus
Aerococcus
, for which the name Aerococcus vaginalis sp. nov. is proposed. The type strain is BV2T ( = JCM 19163T = DSM 27293T). Emended descriptions of
Aerococcus suis
,
Aerococcus viridans
,
Aerococcus urinaeequi
,
Aerococcus urinaehominis
,
Aerococcus urinae
,
Aerococcus christensenii
and
Aerococcus sanguinicola
are also presented.
Collapse
|
29
|
Tohno M, Kitahara M, Irisawa T, Masuda T, Uegaki R, Ohkuma M, Tajima K. Lactobacillus silagei sp. nov., isolated from orchardgrass silage. Int J Syst Evol Microbiol 2013; 63:4613-4618. [DOI: 10.1099/ijs.0.053124-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-positive, facultatively anaerobic, non-spore-forming and catalase-negative rod-shaped bacterial strain, designated IWT126T, was isolated from orchardgrass (Dactylis glomerata L.) silage preserved in Hachimantai, Iwate, Japan. The isolate showed growth at 15–45 °C, pH 3.5–7.5 and with 4.0 % (w/v) NaCl. The cell wall peptidoglycan did not contain meso-diaminopimelic acid, and the DNA G+C content was 45.6 mol%. The major cellular fatty acids were C16 : 0 and C19 : 1 cyclo 9,10. Based on 16S rRNA gene sequence similarity, strain IWT126T was classified as a member of the genus
Lactobacillus
and was most closely related to
Lactobacillus odoratitofui
YIT 11304T (98.7 %),
Lactobacillus similis
JCM 2765T (98.5 %),
Lactobacillus collinoides
JCM 1123T (97.6 %),
Lactobacillus paracollinoides
DSM 15502T (97.6 %) and
Lactobacillus kimchicus
DCY51T (96.9 %). Based on sequence analysis of the phenylalanyl-tRNA synthase α-subunit (pheS) gene, strain IWT126T was well separated from its phylogenetic neighbours in the genus
Lactobacillus
. Based on physiological, biochemical and genotypic results, as well as low DNA–DNA relatedness to recognized phylogenetic relatives in the genus
Lactobacillus
, classification of strain IWT126T as a representive of a novel species named Lactobacillus silagei sp. nov. is proposed. The type strain is IWT126T ( = JCM 19001T = DSM 27022T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Tomohiro Irisawa
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Takaharu Masuda
- The United Graduate School of Agricultural Sciences, Iwate University, Morioka 020-8550, Japan
- Iwate Agricultural Research Center Animal Industry Research Institute, Morioka 028-2711, Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
30
|
Tohno M, Kitahara M, Irisawa T, Masuda T, Uegaki R, Ohkuma M, Tajima K. Description of
Lactobacillus
iwatensis sp. nov., isolated from orchardgrass (Dactylis glomerata L.) silage, and
Lactobacillus
backii sp. nov. Int J Syst Evol Microbiol 2013; 63:3854-3860. [DOI: 10.1099/ijs.0.051920-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Two bacterial strains, designated IWT246T and IWT248, were isolated from orchardgrass (Dactylis glomerata L.) silage from Iwate prefecture, Japan, and examined for a taxonomic study. Both organisms were rod-shaped, Gram-stain-positive, catalase-negative, facultatively anaerobic and homofermentative. The cell wall did not contain meso-diaminopimelic acid and the major fatty acids were C18 : 1ω9c and C19 cyclo 9,10/:1. Comparative analyses of 16S rRNA, pheS and rpoA gene sequences revealed that these strains were novel and belonged to the genus
Lactobacillus
. Based on 16S rRNA gene sequence similarity, the isolates were most closely related to the type strains of the following members of the genus
Lactobacillus
:
Lactobacillus coryniformis subsp. coryniformis
(96.7 % similarity),
L. coryniformis subsp. torquens
(96.6 %),
L. bifermentans
(95.5 %) and
L. rennini
(94.1 %). However, the 16S rRNA gene sequences of both IWT246T and IWT248 were 99.7 % similar to that of ‘
Lactobacillus
backi’ JCM 18665; this name has not been validly published. Genotypic, phenotypic and chemotaxonomic analyses confirmed that these novel strains occupy a unique taxonomic position. DNA–DNA hybridization experiments demonstrated genotypic separation of the novel isolates from related
Lactobacillus
species. The name
Lactobacillus
iwatensis sp. nov. is proposed for the novel isolates, with strain IWT246T ( = JCM 18838T = DSM 26942T) as the type strain. Our results also suggest that ‘L. backi’ does represent a novel
Lactobacillus
species. The cells did not contain meso-diaminopimelic acid in their cell-wall peptidoglycan and the major fatty acids were C16 : 0, C19 cyclo 9,10/:1 and summed feature 10 (one or more of C18 : 1ω11c, C18 : 1ω9t, C18 : 1ω6t and unknown ECL 17.834). We therefore propose the corrected name
Lactobacillus
backii sp. nov., with the type strain JCM 18665T ( = LMG 23555T = DSM 18080T = L1062T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Tomohiro Irisawa
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Takaharu Masuda
- United Graduate School of Agricultural Sciences, Iwate University, Morioka 020-8550, Japan
- Iwate Agricultural Research Center, Animal Industry Research Institute, Morioka 028-2711, Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
31
|
Tohno M, Kitahara M, Irisawa T, Inoue H, Uegaki R, Ohkuma M, Tajima K. Lactobacillus
oryzae sp. nov., isolated from fermented rice grain (Oryza sativa L. subsp. japonica). Int J Syst Evol Microbiol 2013; 63:2957-2962. [DOI: 10.1099/ijs.0.048918-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The taxonomic position of three
Lactobacillus
-like micro-organisms (strains SG293T, SG296 and SG310) isolated from fermented rice grain (Oryza sativa L. subsp. japonica) in Japan was investigated. These heterofermentative lactic acid bacteria were Gram-stain-positive, rod-shaped, facultatively anaerobic, non-motile, non-spore-forming and did not show catalase activity. 16S rRNA gene sequence analysis of strain SG293T revealed that the type strains of
Lactobacillus malefermentans
(98.3 %),
Lactobacillus odoratitofui
(96.2 %),
Lactobacillus similis
(96.1 %),
Lactobacillus kimchicus
(96.1 %),
Lactobacillus paracollinoides
(95.9 %) and
Lactobacillus collinoides
(95.7 %) were the closest neighbours. Additional phylogenetic analysis on the basis of pheS and rpoA gene sequences, as well as biochemical and physiological characteristics, indicated that these three strains were members of the genus
Lactobacillus
and that the novel isolates had a unique taxonomic position. The predominant cellular fatty acids were C18 : 1ω9c and C19 : 1 cyclo 9,10. Because low DNA–DNA hybridization values among the isolates and
Lactobacillus malefermentans
JCM 12497T were observed, it is proposed that these unidentified isolates be classified as a novel species of the genus
Lactobacillus
,
Lactobacillus
oryzae sp. nov. The type strain is SG293T ( = JCM 18671T = DSM 26518T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Tomohiro Irisawa
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Hidehiko Inoue
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
32
|
Segmented filamentous bacteria are a major group in terminal ileum of piglets. Anaerobe 2013; 23:109-11. [PMID: 23891962 DOI: 10.1016/j.anaerobe.2013.07.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2013] [Revised: 07/15/2013] [Accepted: 07/17/2013] [Indexed: 12/21/2022]
Abstract
Metabolically active microbiota of the porcine terminal ileum mucosa was analyzed by RT-PCR of 16S rRNAs. The majority of 1951 sequences retrieved (24.8%) displayed the closest similarity to segmented filamentous bacteria (SFB). Phylogenetic analysis inferred the host-specific clusters of SFB sequences suggesting the host-specific selection of this group of bacteria.
Collapse
|
33
|
Tohno M, Kitahara M, Uegaki R, Irisawa T, Ohkuma M, Tajima K. Lactobacillus
hokkaidonensis sp. nov., isolated from subarctic timothy grass (Phleum pratense L.) silage. Int J Syst Evol Microbiol 2013; 63:2526-2531. [DOI: 10.1099/ijs.0.047027-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Four strains of Gram-positive, non-spore-forming, rod-shaped, catalase-negative and non-motile lactic acid bacteria, LOOC260T, LOOC253, LOOC273 and LOOC279, were isolated from timothy grass (Phleum pratense L.) silage produced in Hokkaido, a subarctic region of Japan. These isolates grew at 4–37 °C, indicating the psychrotolerant nature of these strains. Phylogenetic analysis on the basis of 16S rRNA and pheS gene sequences, as well as biochemical and physiological characteristics, indicated that these four strains were members of the genus
Lactobacillus
. 16S rRNA gene sequence analysis of strain LOOC260T demonstrated that the closest neighbours were the type strains of
Lactobacillus suebicus
(97.7 %),
Lactobacillus oligofermentans
(96.7 %) and
Lactobacillus vaccinostercus
(96.7 %). Strain LOOC260T showed low levels of DNA–DNA association with
Lactobacillus suebicus
JCM 9504T (14.7±3.5 %),
Lactobacillus oligofermentans
JCM 16175T (15.1±4.8 %) and
Lactobacillus vaccinostercus
JCM 1716T (10.7±3.0 %). The cell wall contained meso-diaminopimelic acid and the major fatty acids were C18 : 1ω9c and C19 : 1 cyclo 9,10. On the basis of phenotypic, physiological and phylogenetic evidence, these isolates represent a novel species of the genus
Lactobacillus
, for which the name
Lactobacillus
hokkaidonensis sp. nov. is proposed. The type strain is LOOC260T ( = JCM 18461T = DSM 26202T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Tomohiro Irisawa
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
34
|
Dunière L, Sindou J, Chaucheyras-Durand F, Chevallier I, Thévenot-Sergentet D. Silage processing and strategies to prevent persistence of undesirable microorganisms. Anim Feed Sci Technol 2013. [DOI: 10.1016/j.anifeedsci.2013.04.006] [Citation(s) in RCA: 103] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
35
|
Tohno M, Kitahara M, Inoue H, Uegaki R, Irisawa T, Ohkuma M, Tajima K. Weissella oryzae sp. nov., isolated from fermented rice grains. Int J Syst Evol Microbiol 2013; 63:1417-1420. [DOI: 10.1099/ijs.0.043612-0] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A taxonomic study was conducted on two Gram-reaction-positive, catalase-negative, irregular short-rod-shaped or coccoid lactic acid bacteria, designated strains SG25T and SG23, that were isolated from grains of fermented Japanese rice (Oryza sativa L. subsp. japonica). A phylogenetic analysis based on 16S rRNA gene sequence data clearly showed that the strains belonged to the genus
Weissella
and were most closely related to
Weissella soli
LMG 20113T (with a sequence similarity of 96.9 % for each novel strain). The peptidoglycan of each strain contained the amino acids glutamic acid, lysine, serine and alanine in a molar ratio of 1.0 : 1.2 : 0.5 : 3.0, respectively. On the basis of the unusual phenotypic characteristics of the novel strains and the low levels of DNA–DNA relatedness recorded between each novel strain and
Weissella soli
JCM 12536T, strains SG25T and SG23 represent a single novel species in the genus
Weissella
, for which the name Weissella oryzae sp. nov. is proposed. The type strain is SG25T ( = JCM 18191T = DSM 25784T).
Collapse
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Maki Kitahara
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Hidehiko Inoue
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Nasushiobara 329-2793, Japan
| | - Tomohiro Irisawa
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Moriya Ohkuma
- Microbe Division/Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Ibaraki 305-0074, Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science, Tsukuba, Ibaraki 305-0901, Japan
| |
Collapse
|
36
|
Tohno M, Kobayashi H, Tajima K, Uegaki R. Strain-dependent effects of inoculation ofLactobacillus plantarumsubsp.plantarumon fermentation quality of paddy rice (Oryza sativaL. subsp.japonica) silage. FEMS Microbiol Lett 2012; 337:112-9. [DOI: 10.1111/1574-6968.12014] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2012] [Revised: 07/25/2012] [Accepted: 09/20/2012] [Indexed: 11/27/2022] Open
Affiliation(s)
- Masanori Tohno
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science; Nasushiobara; Tochigi; Japan
| | - Hisami Kobayashi
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science; Tsukuba; Ibaraki; Japan
| | - Kiyoshi Tajima
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science; Tsukuba; Ibaraki; Japan
| | - Ryuichi Uegaki
- National Agriculture and Food Research Organization, National Institute of Livestock and Grassland Science; Nasushiobara; Tochigi; Japan
| |
Collapse
|