Ligilactobacillus ruminis (DSM 20403, ATCC 27780, CCUG 39465)

Name: Ligilactobacillus ruminis (DSM 20403, ATCC 27780, CCUG 39465)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6510

Type strain

Strain Designation RFl, RF 1

Culture col. no. DSM 20403 ATCC 27780 CCUG 39465 JCM 1152 LMG 10756 13 more

NCBI tax ID(s) 1623

Special Collections DSMZ CCUG JCM KCTC CIP

History <- M.E. Sharpe, RFl ATCC 27780 <-- M. E. Sharpe RF1. CIP <- 1988, NCFB <- 1973, M.J. Lathan: strain RF 1

Links

Ligilactobacillus ruminis RFl is an anaerobe bacterium that was isolated from bovine rumen.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 3363

LMG 10756,ATCC 27780,CIP 103153,DSM 20403,JCM 1152,NCFB 2029,CCUG 39465,NCDO 2029,CCRC 14620,NCIMB 702029,CECT 4061,KCTC 3601,NRRL B-14853,BCRC 14620,NBRC 102161,VTT E-97852,CECT 7785

@ref 20215

Last LPSN update 2026-02-09 11:19:14

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Ligilactobacillus

Species Ligilactobacillus ruminis

Full scientific name Ligilactobacillus ruminis (Sharpe et al. 1973) Zheng et al. 2020

Synonyms (1)

Lactobacillus ruminis

BacDive ID	Other strains from **Ligilactobacillus ruminis** (3)	Type strain
6511	L. ruminis RF 2, DSM 20404, ATCC 27781, JCM 1182, LMG ...
6512	L. ruminis 244, DSM 20511
158988	L. ruminis LKV-472-APC-10, DSM 107447

Morphology

Colony morphology

54804

Incubation period2 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8789	MRS MEDIUM WITH CYSTEINE (DSMZ Medium 232)	Medium recipe at MediaDive	Name: MRS MEDIUM WITH CYSTEINE (DSMZ Medium 232) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)2 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
40544	MEDIUM 43 - for Lactobacillus hamsteri and Lactobacillus ruminis		Distilled water make up to (900.000 ml);Man Rogosa Sharp broth (55.000 g);Cysteine hydrochloride 5 % solution - M0172 (100.000 ml)
122313	CIP Medium 41	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
8789	positive	growth	37
40544	positive	growth	37
54804	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
8789	anaerobe
54804	anaerobe
54804	microaerophile
125439	microaerophile	93.6

Murein

@ref	Murein short key	Type
8789	A31	A1gamma m-Dpm-direct

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	+	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	+	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	+	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
8789	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+	+	+	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-
8789	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+	+	+	+	-	-	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

Isolation

@ref	Sample type
8789	bovine rumen
54804	Bovine rumen
67770	Bovine rumen
122313	Animal, Cattle, rumen

Taxonmaps

69479

Global distribution of 16S sequence LC064897 (>99% sequence identity) for Ligilactobacillus ruminis subclade from Microbeatlas

Aquatic Samples	6299
Soil Samples	2943
Animal Samples	110193
Plant Samples	977
Total Samples	120412

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8789	1	Risk group (German classification) According to TRBA 466
122313	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2593339155 annotated assembly for Ligilactobacillus ruminis DSM 20403 = NBRC 102161	scaffold	GCA_900113455	1423798.5	2593339155	1423798	63.29
67770	ASM143647v1 assembly for Ligilactobacillus ruminis DSM 20403 = NBRC 102161	contig	GCA_001436475	1423798.3	2667527649	1423798	54.49
67770	ASM100875v1 assembly for Ligilactobacillus ruminis ATCC 27780	contig	GCA_001008755	1623.10	2627853909	1623	53.21
67770	ASM159190v1 assembly for Ligilactobacillus ruminis DSM 20403 = NBRC 102161	contig	GCA_001591905	1423798.4	2731957672	1423798	50.53

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Lactobacillus ruminis 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer region, complete sequence; and 23S ribosomal RNA gene, partial sequence	AF080103	533	1623
20218	Lactobacillus ruminus 16S ribosomal RNA	M58828	1567	1623
20218	Lactobacillus ruminis gene for 16S rRNA, partial sequence, strain: JCM 1152	AB289286	659	1623
20218	Lactobacillus ruminis gene for 16S rRNA, partial sequence, strain: NBRC 102161	AB326354	1488	1623
67770	Lactobacillus ruminis gene for 16S ribosomal RNA, partial sequence, strain: JCM 1152	LC064897	1465	1623
124043	Ligilactobacillus ruminis JCM:1152 gene for 16S rRNA, partial sequence.	LC723858	1506	1623

GC content

@ref	GC-content (mol%)	Method
8789	43.8
67770	43.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ligilactobacillus ruminis DSM 20403 = NBRC 102161
NCBI: GCA_900113455

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	69.70	no
125439	motility	BacteriaNetⓘ	yes	74.70	no
125439	gram_stain	BacteriaNetⓘ	variable	86.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	93.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus ruminis DSM 20403 = NBRC 102161
PATRIC: 1423798.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.50	no
125438	anaerobic	anaerobicⓘ	no	67.48	no
125438	spore-forming	spore-formingⓘ	no	76.93	no
125438	aerobic	aerobicⓘ	no	97.05	no
125438	thermophilic	thermophileⓘ	no	94.21	yes
125438	flagellated	motile2+ⓘ	yes	55.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Characterization of antibiotic resistance genes in the species of the rumen microbiota.	Sabino YNV, Santana MF, Oyama LB, Santos FG, Moreira AJS, Huws SA, Mantovani HC.	Nat Commun	10.1038/s41467-019-13118-0	2019
Genetics	Genus-Wide Assessment of Antibiotic Resistance in Lactobacillus spp.	Campedelli I, Mathur H, Salvetti E, Clarke S, Rea MC, Torriani S, Ross RP, Hill C, O'Toole PW.	Appl Environ Microbiol	10.1128/aem.01738-18	2019
	From an Hsp90 - binding protein to a peptide drug.	Ammanath AV, Jarneborn A, Nguyen MT, Wessling L, Tribelli P, Nega M, Beck C, Luqman A, Selim KA, Kalbacher H, Macek B, Hammer SB, Jin T, Gotz F.	Microlife	10.1093/femsml/uqac023	2023
Genetics	Lactobacillus ruminis strains cluster according to their mammalian gut source.	O' Donnell MM, Harris HM, Lynch DB, Ross RP, O'Toole PW.	BMC Microbiol	10.1186/s12866-015-0403-y	2015
	Identification of human gut bacteria that produce bioactive serotonin and promote colonic innervation.	Moretti CH, Grasset E, Zhu J, Yang G, Olofsson LE, Khan MT, Bergh PO, Oh JH, Lundqvist A, van Gils T, Kramer M, Olsson LM, Patel P, Mitteregger M, Monges DE, Dwibedi C, Krautkramer KA, Koopman N, Henricsson M, Macpherson AJ, Schwartz T, Grompone G, Pijkeren JV, Tremaroli V, Roos S, Simren M, Backhed F.	Cell Rep	10.1016/j.celrep.2025.116434	2025
	The crystal structure of the N-terminal domain of the backbone pilin LrpA reveals a new closure-and-twist motion for assembling dynamic pili in Ligilactobacillus ruminis.	Prajapati A, Palva A, von Ossowski I, Krishnan V.	Acta Crystallogr D Struct Biol	10.1107/s2059798324005114	2024
Genetics	Exploring the mechanisms of protective effect of high-energy X-ray FLASH radiotherapy on intestine through multi omics analysis.	Du H, Lin B, Zhu Y, Hao X, Tang M, Wu W, Wang D, Yang Y, Liang Y, Tang W, Xu H, Li J, Gao F, Du X.	Radiat Oncol	10.1186/s13014-025-02763-z	2025
Genetics	Deciphering the gut microbiota's role in diverticular disease: insights from a Mendelian randomization study.	Zheng B, Chen D, Zeng H, Lin S.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1460504	2024
	In Silico Identification and Molecular Characterization of Lentilactobacillus hilgardii Antimicrobial Peptides with Activity Against Carbapenem-Resistant Acinetobacter baumannii.	Appel A, Velazco L, Alreja AB, LeClair K, Duggal AP, Vashee I, Taal AM, Gonzalez-Juarbe N, Fouts DE.	Antibiotics (Basel)	10.3390/antibiotics14101004	2025
	Multi-kingdom microbial changes and their associations with the clinical characteristics in schizophrenia patients.	Zhu B, Liang L, Chen S, Li H, Huang Y, Wang W, Zhang H, Zhou J, Xiong D, Li X, Li J, Ning Y, Shi X, Wu F, Wu K.	Transl Psychiatry	10.1038/s41398-025-03449-6	2025
Genetics	Exploring the role of intestinal microbiota in mitigating acute radiation-induced intestinal injury through high-energy X-ray FLASH radiotherapy via metagenomic analysis.	Du H, Hao X, Lin B, Zhu Y, Yang Y, Tang M, Wu W, Wang D, Lin B, Liang Y, Tang W, Xu H, Li J, Gao F, Du X.	Front Microbiol	10.3389/fmicb.2025.1601244	2025
	Compositional and functional features of the intestinal lactobacilli associated with different long-term diet types.	Yi S, Zhang C, Yin P, Yu L, Tian F, Chen W, Zhai Q.	Food Funct	10.1039/d3fo02182c	2023
	Limosilactobacillus fermentum, Lactococcus lactis and Thomasclavelia ramosa are enriched and Methanobrevibacter smithii is depleted in patients with non-alcoholic steatohepatitis.	Mbaye B, Wasfy RM, Alou MT, Borentain P, Andrieu C, Caputo A, Raoult D, Gerolami R, Million M.	Microb Pathog	10.1016/j.micpath.2023.106160	2023
Genetics	Whole-Genome Sequence Analysis and Subtractive Screening of Lactobacilli in the Searching for New Probiotics to Protect the Mammary Glands.	Bujnakova D, Galambosiova T, Karahutova L.	Int J Mol Sci	10.3390/ijms262110809	2025
Transcriptome	Partial Treponema spp. as candidate probiotics for rumen methane mitigation revealed by a module-based activity index.	Wang W, Chen X, Fang D, Li L, Yueda AG, Gan J, Deng X, Ma X, Chen Y, Shi Y, He F, Wu C, Yi Z, Fu M, Yi J.	Front Vet Sci	10.3389/fvets.2025.1654829	2025
	Prospective Comparative Study of an Oral Synbiotic and a Myoinositol-Based Herbal Supplement in Modifying Hormone Levels and the Gut Microbiome in Non-cystic Acne.	Min M, Afzal N, Maloh J, Dulai AS, Ahmad N, Pinzauti D, Sivamani RK.	Dermatol Ther (Heidelb)	10.1007/s13555-025-01411-4	2025
	Lactation time influences the composition of Bifidobacterium and Lactobacillus at species level in human breast milk.	Ding M, Zheng Y, Liu F, Tian F, Ross RP, Stanton C, Yu R, Zhao J, Zhang H, Yang B, Chen W.	Benef Microbes	10.3920/bm2021.0119	2022
	Characterization of a putative metal-dependent PTP-like phosphatase from Lactobacillus helveticus 2126.	Priyodip P, Balaji S.	Int Microbiol	10.1007/s10123-023-00390-w	2024
	Insight into gut dysbiosis of patients with inflammatory bowel disease and ischemic colitis.	Dahal RH, Kim S, Kim YK, Kim ES, Kim J.	Front Microbiol	10.3389/fmicb.2023.1174832	2023
	Comprehensive gut microbiota composition and microbial interactions among the three age groups.	Ma J, Yang X, He J.	PLoS One	10.1371/journal.pone.0305583	2024
	Metagenomic sequencing identified microbial species in the rumen and cecum microbiome responsible for niacin treatment and related to intramuscular fat content in finishing cattle.	Yang Z, Chen X, Yu M, Jing R, Bao L, Zhao X, Pan K, Chao B, Qu M.	Front Microbiol	10.3389/fmicb.2024.1334068	2024
	Fecal microbiome profiling of children with Shigella diarrhea from low- and middle-income countries.	Fan Y, Li Y, Wang L, Zhao D, Zhou Y, Houpt ER, Liu J.	Microbiol Spectr	10.1128/spectrum.00573-25	2025
	LrpCBA pilus proteins of gut-dwelling Ligilactobacillus ruminis: crystallization and X-ray diffraction analysis.	Prajapati A, Palva A, von Ossowski I, Krishnan V.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x21007263	2021
Phylogeny	Characterization of blood microbial population in beef calves with clinical signs of sepsis using 16S rRNA gene sequencing.	Borriello G, Valentini F, Ferrini S, Di Muro G, Cagnotti G, Grego E, Catania AM, Stella MC, Ala U, Nebbia P, D'Angelo A, Bellino C.	PLoS One	10.1371/journal.pone.0324469	2025
Genetics	A Spatiotemporal Atlas of the Gut Microbiota in Macaca mulatta brevicaudus: Implications for Health and Environment.	Yuan J, Sun Z, Sun R, Wang J, Wu C, Liu B, Zhao X, Li Q, Zhao J, Cai K.	Biology (Basel)	10.3390/biology14080980	2025
	Disease-associated microbiome signature species in the gut.	Li J, Li J, O'Toole PW.	PNAS Nexus	10.1093/pnasnexus/pgae352	2024
	Decoding the Gut Microbiota in Multiple Sclerosis Using Nanopore Long-Read Sequencing: Insights into Disease Severity and Subtypes.	Alshinnawy AS, Badiea EA, Swelam MS, Sayed AA, Mohamed MR.	Mol Neurobiol	10.1007/s12035-025-05194-9	2025
	Lactobacillus delbrueckii subsp. allosunkii and lactis as emerging human uropathogens in elderly patients.	Guerin F, Sassi M, Gravey F, Zouari A, Quenet B, Lecourt M, Ract P, Michaux C, Auzou M, Isnard C, Cattoir V.	J Clin Microbiol	10.1128/jcm.02072-24	2025
	Drugs Versus Microbiota: How Pharmacotherapy Affects Gut and Probiotic Bacteria.	Zawistowska-Rojek A, Tyski S.	Pharmaceuticals (Basel)	10.3390/ph18091372	2025
Phylogeny	A Two-Faced Gut Microbiome: Butyrogenic and Proinflammatory Bacteria Predominate in the Intestinal Milieu of People Living with HIV from Western Mexico.	Baltazar-Diaz TA, Andrade-Villanueva JF, Sanchez-Alvarez P, Amador-Lara F, Holguin-Aguirre T, Sanchez-Reyes K, Alvarez-Zavala M, Lopez-Roa RI, Bueno-Topete MR, Gonzalez-Hernandez LA.	Int J Mol Sci	10.3390/ijms25094830	2024
Genetics	High throughput single cell metagenomic sequencing with semi-permeable capsules: unraveling microbial diversity at the single-cell level in sewage and fecal microbiomes.	Ling M, Szarvas J, Kurmauskaite V, Kiseliovas V, Zilionis R, Avot B, Munk P, Aarestrup FM.	Front Microbiol	10.3389/fmicb.2024.1516656	2024
Genetics	Diet-Gut Microbiota Relations: Critical Appraisal of Evidence From Studies Using Metagenomics.	Lotankar M, Houttu N, Mokkala K, Laitinen K.	Nutr Rev	10.1093/nutrit/nuae192	2025
	Probiotics in inflammatory bowel diseases: emphasis on mechanisms and clinical application.	Zhang J, Zhang X, Cheng X, Wang S, Lv Y, Zheng X, Wu G.	Front Med (Lausanne)	10.3389/fmed.2025.1620079	2025
	The association between gut microbiota composition and cardiometabolic parameters in healthy adults	Okalin S, Arslan N, Demiray Gurbuz E, Arayici M, Kirca N, Ozel Demiralp D, Dereli-Akdeniz D, Akan P, Ozkutuk A.	BMC Microbiol		2025
	Different intestinal ecological niches drive the divergent evolution of probiotics in the gut.	Han Z, Huang D, Liu X, Ma W, Cui W, Jiang S, Zhen D, Zhang J.	ISME Commun	10.1093/ismeco/ycaf023	2025
	Screening Microbial Interactions During Inulin Utilization Reveals Strong Competition and Proteomic Changes in Lacticaseibacillus paracasei M38.	Vega-Sagardia M, Cabezon EC, Delgado J, Ruiz-Moyano S, Garrido D.	Probiotics Antimicrob Proteins	10.1007/s12602-023-10083-5	2024
	Interplay between the gut microbiome and typhoid fever: insights from endemic countries and a controlled human infection model.	Ashton PM, Mageiros L, Meiring JE, Chunga-Chirambo A, Khanam F, Dongol S, Banda H, Karkey A, Preciado-Llanes L, Thomaides-Brears H, Gibani M, Rajib NH, Rahman N, Biswas PK, Bhuiyan MAI, Kay S, Auger K, Seret O, Thomson NR, Pollard AJ, Baker S, Basnyat B, Clemens JD, Dolecek C, Dunstan SJ, Dougan G, Heyderman RS, Pitzer VE, Qadri F, Gordon MA, Holt KE, Darton TC, STRATAA Study Group.	Microbiome	10.1186/s40168-025-02125-7	2025
	Probiotic Mixture Attenuates Colorectal Tumorigenesis in Murine AOM/DSS Model by Suppressing STAT3, Inducing Apoptotic p53 and Modulating Gut Microbiota.	Leung HKM, Lo EKK, Chen C, Zhang F, Felicianna, Ismaiah MJ, El-Nezami H.	Probiotics Antimicrob Proteins	10.1007/s12602-024-10405-1	2025
	Microbiome signature suggestive of lactose-intolerance in rhesus macaques (Macaca mulatta) with intermittent chronic diarrhea.	Maaskant A, Voermans B, Levin E, de Goffau MC, Plomp N, Schuren F, Remarque EJ, Smits A, Langermans JAM, Bakker J, Montijn R.	Anim Microbiome	10.1186/s42523-024-00338-z	2024
	Intestinal Barrier Impairment Induced by Gut Microbiome and Its Metabolites in School-Age Children with Zinc Deficiency.	Chai X, Chen X, Yan T, Zhao Q, Hu B, Jiang Z, Guo W, Zhang Y.	Nutrients	10.3390/nu16091289	2024
Metabolism	Exploring the role of gut microbiota modulation in the long-term therapeutic benefits of early MSC transplantation in MRL/lpr mice.	Pan Q, Guo F, Chen J, Huang H, Huang Y, Liao S, Xiao Z, Wang X, You L, Yang L, Huang X, Xiao H, Liu HF, Pan Q.	Cell Mol Biol Lett	10.1186/s11658-025-00716-8	2025
Metabolism	Low-dose valine attenuates diet-induced metabolic dysfunction-associated steatotic liver disease (MASLD) in mice by enhancing leptin sensitivity and modulating the gut microbiome.	Felicianna, Lo EKK, Chen C, Ismaiah MJ, Zhang F, Leung HKM, El-Nezami H.	Mol Metab	10.1016/j.molmet.2024.102059	2024
Genetics	Characterization of Ligilactobacillus salivarius CRISPR-Cas systems.	Roberts A, Spang D, Sanozky-Dawes R, Nethery MA, Barrangou R.	mSphere	10.1128/msphere.00171-24	2024
	Establishment of porcine fecal-derived ex vivo microbial communities to evaluate the impact of livestock feed on gut microbiome.	Tsujikawa Y, Nishiyama K, Namai F, Imamura Y, Sakuma T, Saha S, Suzuki M, Sakurai M, Iwata R, Matsuo K, Takamori H, Suda Y, Zhou B, Fukuda I, Villena J, Sakane I, Osawa R, Kitazawa H.	Biosci Microbiota Food Health	10.12938/bmfh.2023-085	2024
	Comparative genomic analysis of Periweissella and the characterization of novel motile species.	Qiao N, Bechtner J, Cnockaert M, Depoorter E, Diaz-Munoz C, Vandamme P, De Vuyst L, Ganzle MG.	Appl Environ Microbiol	10.1128/aem.01034-23	2023
	Negative chemotaxis of Ligilactobacillus agilis BKN88 against gut-derived substances.	Suzuki S, Yokota K, Igimi S, Kajikawa A.	Sci Rep	10.1038/s41598-023-42840-5	2023
	In Vitro Screen of Lactobacilli Strains for Gastrointestinal and Vaginal Benefits.	Anglenius H, Makivuokko H, Ahonen I, Forssten SD, Wacklin P, Matto J, Lahtinen S, Lehtoranta L, Ouwehand AC.	Microorganisms	10.3390/microorganisms11020329	2023
Phylogeny	Comparison between 16S rRNA and shotgun sequencing in colorectal cancer, advanced colorectal lesions, and healthy human gut microbiota.	Bars-Cortina D, Ramon E, Rius-Sansalvador B, Guino E, Garcia-Serrano A, Mach N, Khannous-Lleiffe O, Saus E, Gabaldon T, Ibanez-Sanz G, Rodriguez-Alonso L, Mata A, Garcia-Rodriguez A, Obon-Santacana M, Moreno V.	BMC Genomics	10.1186/s12864-024-10621-7	2024
	Efficacy of Bifidobacterium animalis subsp. lactis BL-99 in the treatment of functional dyspepsia: a randomized placebo-controlled clinical trial.	Zhang Q, Li G, Zhao W, Wang X, He J, Zhou L, Zhang X, An P, Liu Y, Zhang C, Zhang Y, Liu S, Zhao L, Liu R, Li Y, Jiang W, Wang X, Wang Q, Fang B, Zhao Y, Ren Y, Niu X, Li D, Shi S, Hung WL, Wang R, Liu X, Ren F.	Nat Commun	10.1038/s41467-023-44292-x	2024
	Age-related effects on the modulation of gut microbiota by pectins and their derivatives: an in vitro study.	Gu F, Larsen N, Pascale N, Petersen SA, Khakimov B, Respondek F, Jespersen L.	Front Microbiol	10.3389/fmicb.2023.1207837	2023
Genetics	Integrated Phenotypic-Genotypic Analysis of Latilactobacillus sakei from Different Niches.	Chen Y, Li N, Zhao S, Zhang C, Qiao N, Duan H, Xiao Y, Yan B, Zhao J, Tian F, Zhai Q, Yu L, Chen W.	Foods	10.3390/foods10081717	2021
Metabolism	Collinsella aerofaciens linked with increased ethanol production and liver inflammation contribute to the pathophysiology of NAFLD.	Purohit A, Kandiyal B, Kumar S, Pragasam AK, Kamboj P, Talukdar D, Verma J, Sharma V, Sarkar S, Mahajan D, Yadav R, Ahmed R, Nanda R, Dikshit M, Banerjee SK, Shalimar, Das B.	iScience	10.1016/j.isci.2023.108764	2024
Pathogenicity	Probiotics, their action modality and the use of multi-omics in metamorphosis of commensal microbiota into target-based probiotics.	Idrees M, Imran M, Atiq N, Zahra R, Abid R, Alreshidi M, Roberts T, Abdelgadir A, Tipu MK, Farid A, Olawale OA, Ghazanfar S.	Front Nutr	10.3389/fnut.2022.959941	2022
	Ethnic Specificity of Species and Strain Composition of Lactobacillus Populations From Mother-Infant Pairs, Uncovered by Multilocus Sequence Typing.	Yuan L, Zhang X, Luo B, Li X, Tian F, Yan W, Ni Y.	Front Microbiol	10.3389/fmicb.2022.814284	2022
	Higher pathogen load in children from Mozambique vs. USA revealed by comparative fecal microbiome profiling.	Kim M, Rodriguez-R LM, Hatt JK, Kayali O, Nala R, Dunlop AL, Brennan PA, Corwin E, Smith AK, Brown J, Konstantinidis KT.	ISME Commun	10.1038/s43705-022-00154-z	2022
	Acids produced by lactobacilli inhibit the growth of commensal Lachnospiraceae and S24-7 bacteria.	Brownlie EJE, Chaharlangi D, Wong EO, Kim D, Navarre WW.	Gut Microbes	10.1080/19490976.2022.2046452	2022
Metabolism	Characterization of variations within the rumen metaproteome of Holstein dairy cattle relative to morning feed offering.	Honan MC, Greenwood SL.	Sci Rep	10.1038/s41598-020-59974-5	2020
	Dissecting the role of the human microbiome in COVID-19 via metagenome-assembled genomes.	Ke S, Weiss ST, Liu YY.	Nat Commun	10.1038/s41467-022-32991-w	2022
	Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population.	Manara S, Selma-Royo M, Huang KD, Asnicar F, Armanini F, Blanco-Miguez A, Cumbo F, Golzato D, Manghi P, Pinto F, Valles-Colomer M, Amoroso L, Corrias MV, Ponzoni M, Raffaeta R, Cabrera-Rubio R, Olcina M, Pasolli E, Collado MC, Segata N.	Curr Biol	10.1016/j.cub.2023.04.011	2023
Genetics	Taxonomic, Genomic, and Functional Variation in the Gut Microbiomes of Wild Spotted Hyenas Across 2 Decades of Study.	Rojas CA, Holekamp KE, Viladomat Jasso M, Souza V, Eisen JA, Theis KR.	mSystems	10.1128/msystems.00965-22	2023
	Antiviral effects of Lactobacillus ruminis SPM0211 and Bifidobacterium longum SPM1205 and SPM1206 on rotavirus-infected Caco-2 cells and a neonatal mouse model.	Kang JY, Lee DK, Ha NJ, Shin HS.	J Microbiol	10.1007/s12275-015-5302-2	2015
	The nasal mutualist Dolosigranulum pigrum AMBR11 supports homeostasis via multiple mechanisms.	De Boeck I, Wittouck S, Martens K, Spacova I, Cauwenberghs E, Allonsius CN, Jorissen J, Wuyts S, Van Beeck W, Dillen J, Bron PA, Steelant B, Hellings PW, Vanderveken OM, Lebeer S.	iScience	10.1016/j.isci.2021.102978	2021
Genetics	Comparative Genomics of Lactobacillus acidipiscis ACA-DC 1533 Isolated From Traditional Greek Kopanisti Cheese Against Species Within the Lactobacillus salivarius Clade.	Kazou M, Alexandraki V, Blom J, Pot B, Tsakalidou E, Papadimitriou K.	Front Microbiol	10.3389/fmicb.2018.01244	2018
Genetics	Genome sequences and comparative genomics of two Lactobacillus ruminis strains from the bovine and human intestinal tracts.	Forde BM, Neville BA, O'Donnell MM, Riboulet-Bisson E, Claesson MJ, Coghlan A, Ross RP, O'Toole PW.	Microb Cell Fact	10.1186/1475-2859-10-s1-s13	2011
	Human Gut-Commensalic Lactobacillus ruminis ATCC 25644 Displays Sortase-Assembled Surface Piliation: Phenotypic Characterization of Its Fimbrial Operon through In Silico Predictive Analysis and Recombinant Expression in Lactococcus lactis.	Yu X, Jaatinen A, Rintahaka J, Hynonen U, Lyytinen O, Kant R, Avall-Jaaskelainen S, von Ossowski I, Palva A.	PLoS One	10.1371/journal.pone.0145718	2015
Enzymology	Identification and characterisation of vaginal lactobacilli from South African women.	Pendharkar S, Magopane T, Larsson PG, de Bruyn G, Gray GE, Hammarstrom L, Marcotte H.	BMC Infect Dis	10.1186/1471-2334-13-43	2013
Pathogenicity	A Comparative Characterization of Different Host-sourced Lactobacillus ruminis Strains and Their Adhesive, Inhibitory, and Immunomodulating Functions.	Yu X, Avall-Jaaskelainen S, Koort J, Lindholm A, Rintahaka J, von Ossowski I, Palva A, Hynonen U	Front Microbiol	10.3389/fmicb.2017.00657	2017

References

#8789	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20403
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#40544	; Curators of the CIP;
#54804	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 39465
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68371	Automatically annotated from API 50CH acid .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#122313	Collection of Institut Pasteur ; Curators of the CIP; CIP 103153
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Ligilactobacillus ruminis (DSM 20403, ATCC 27780, CCUG 39465)

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