Abstract:
:Bifidobacteria are a major component of the intestinal microbiota in humans, particularly breast-fed infants. Therefore, elucidation of the mechanisms by which these bacteria colonize the intestine is desired. One approach is transposon mutagenesis, a technique currently attracting much attention because, in combination with next-generation sequencing, it enables exhaustive identification of genes that contribute to microbial fitness. We now describe a transposon mutagenesis system for Bifidobacterium longum subsp. longum 105-A (JCM 31944) based on ISBlo11, a native IS3 family insertion sequence. To build this system, xylose-inducible or constitutive bifidobacterial promoters were tested to drive the expression of full-length or a truncated form at the N terminus of the ISBlo11 transposase. An artificial transposon plasmid, pBFS12, in which ISBlo11 terminal inverted repeats are separated by a 3-bp spacer, was also constructed to mimic the transposition intermediate of IS3 elements. The introduction of this plasmid into a strain expressing transposase resulted in the insertion of the plasmid with an efficiency of >103 CFU/μg DNA. The plasmid targets random 3- to 4-bp sequences, but with a preference for noncoding regions. This mutagenesis system also worked at least in B. longum NCC2705. Characterization of a transposon insertion mutant revealed that a putative α-glucosidase mediates palatinose and trehalose assimilation, demonstrating the suitability of transposon mutagenesis for loss-of-function analysis. We anticipate that this approach will accelerate functional genomic studies of B. longum subsp. longumIMPORTANCE Several hundred species of bacteria colonize the mammalian intestine. However, the genes that enable such bacteria to colonize and thrive in the intestine remain largely unexplored. Transposon mutagenesis, combined with next-generation sequencing, is a promising tool to comprehensively identify these genes but has so far been applied only to a small number of intestinal bacterial species. In this study, a transposon mutagenesis system was established for Bifidobacterium longum subsp. longum, a representative health-promoting Bifidobacterium species. The system enables the identification of genes that promote colonization and survival in the intestine and should help illuminate the physiology of this species.
journal_name
Appl Environ Microbioljournal_title
Applied and environmental microbiologyauthors
Sakanaka M,Nakakawaji S,Nakajima S,Fukiya S,Abe A,Saburi W,Mori H,Yokota Adoi
10.1128/AEM.00824-18subject
Has Abstractpub_date
2018-08-17 00:00:00issue
17eissn
0099-2240issn
1098-5336pii
AEM.00824-18journal_volume
84pub_type
杂志文章abstract::Members of a group of marine bacteria that is numerically important in coastal seawater and sediments were characterized with respect to their ability to transform organic and inorganic sulfur compounds. Fifteen strains representing the Roseobacter group (a phylogenetic cluster of marine bacteria in the alpha-subclass...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.65.9.3810-3819.1999
更新日期:1999-09-01 00:00:00
abstract::Differences in individual host responses have emerged as an issue regarding the health benefits of probiotics. Here, we applied ribosome engineering (RE) technology, developed in an actinomycete study, to Lacticaseibacillus rhamnosus GG (LGG). RE can effectively enhance microbial potential by using antibiotics to indu...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01448-20
更新日期:2020-10-01 00:00:00
abstract::A membrane filter procedure has been developed for the rapid quantitation of C. perfringens in the aquatic environment. Background growth is inhibited by the use of D-cycloserine, polymyxin B sulfate, and incubation at 45 degrees C. Differential characteristics include the fermentation of sucrose, production of acid p...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.37.1.55-66.1979
更新日期:1979-01-01 00:00:00
abstract::Thiopeptide antibiotics are an important class of natural products resulting from posttranslational modifications of ribosomally synthesized peptides. Cyclothiazomycin is a typical thiopeptide antibiotic that has a unique bridged macrocyclic structure derived from an 18-amino-acid structural peptide. Here we reported ...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01790-09
更新日期:2010-04-01 00:00:00
abstract::Glutaminase is an enzyme that catalyzes the hydrolysis of l-glutamine to l-glutamate, and it plays an important role in the production of fermented foods by enhancing the umami taste. By using the genome sequence and expressed sequence tag data available for Aspergillus oryzae RIB40, we cloned a novel glutaminase gene...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.00765-12
更新日期:2012-08-01 00:00:00
abstract::Several members of the glycoside hydrolase 61 (GH61) family of proteins have recently been shown to dramatically increase the breakdown of lignocellulosic biomass by microbial hydrolytic cellulases. However, purified GH61 proteins have neither demonstrable direct hydrolase activity on various polysaccharide or lignaci...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.05815-11
更新日期:2011-10-01 00:00:00
abstract::The accurate description of a microbial community is an important first step in understanding the roles of its components in ecosystem function. A method for surveying microbial communities termed serial analysis of rRNA genes (SARD) is described here. Through a series of molecular cloning steps, short DNA sequence ta...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.02956-06
更新日期:2007-07-01 00:00:00
abstract::We examined the genetic structure and symbiotic characteristics of Bradyrhizobium isolates recovered from four legume species (Lupinus albus [white lupine], Lupinus angustifolius [blue lupine], Ornithopus compressus [yellow serradella], and Macroptilium atropurpureum [sirato]) grown in an Oregon soil. We established t...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.60.6.1754-1761.1994
更新日期:1994-06-01 00:00:00
abstract::The microbial degradation of tensile test pieces made of poly(3-hydroxybutyrate) [P(3HB)] or a copolymer of 90% 3-hydroxybutyric acid and 10% 3-hydroxyvaleric acid was studied in soils incubated at a constant temperature of 15, 28, or 40 degrees C for up to 200 days. In addition, hydrolytic degradation in sterile buff...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.59.10.3233-3238.1993
更新日期:1993-10-01 00:00:00
abstract::Taxonomic and phylogenetic fingerprinting based on sequence analysis of gene fragments from the large-subunit rRNA (LSU) gene or the internal transcribed spacer (ITS) region is becoming an integral part of fungal classification. The lack of an accurate and robust classification tool trained by a validated sequence dat...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.06826-11
更新日期:2012-03-01 00:00:00
abstract::A Coxiella-type microbe occurs at 100% frequency in all Amblyomma americanum ticks thus far tested. Using laboratory-reared ticks free of other microbes, we identified the Amblyomma-associated Coxiella microbe in several types of tissue and at various stages of the life cycle of A. americanum by 16S rRNA gene sequenci...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.00537-07
更新日期:2007-10-01 00:00:00
abstract::Thirty-two chemoheterotrophic bacteria were isolated from unsaturated subsurface soil samples obtained from ca. 70 m below land surface in a high desert in southeastern Idaho. Most isolates were gram positive (84%) and strict aerobes (79%). Acridine orange direct counts of microbes in one subsurface sample showed lowe...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.55.9.2420-2423.1989
更新日期:1989-09-01 00:00:00
abstract::The arginine deiminase system was found to function in protecting bacterial cells against the damaging effects of acid environments. For example, as little as 2.9 mM arginine added to acidified suspensions of Streptococcus sanguis at a pH of 4.0 resulted in ammonia production and protection against killing. The argini...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.54.6.1318-1324.1988
更新日期:1988-06-01 00:00:00
abstract::The genes encoding NAD(+)-dependent alanine dehydrogenases (AlaDHs) (EC 1.4.1.1) from the Antarctic bacterial organisms Shewanella sp. strain Ac10 (SheAlaDH) and Carnobacterium sp. strain St2 (CarAlaDH) were cloned and expressed in Escherichia coli. Of all of the AlaDHs that have been sequenced, SheAlaDH exhibited the...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.65.9.4014-4020.1999
更新日期:1999-09-01 00:00:00
abstract::Bacterioplankton community diversity was investigated in the subtropical Brisbane River-Moreton Bay estuary, Australia (27 degrees 25 minutes S, 153 degrees 5 minutes E). Bacterial communities were studied using automated rRNA intergenic spacer analysis (ARISA), which amplifies 16S-23S ribosomal DNA internally transcr...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.70.6.3425-3433.2004
更新日期:2004-06-01 00:00:00
abstract::The degradation of the herbicides EPTC (S-ethyl dipropylthiocarbamate) and atrazine (2-chloro-4-ethyl-amino-6-isopropylamino-1,3,5-triazine) is associated with an indigenous plasmid in Rhodococcus sp. strain TE1. Plasmid DNA libraries of Rhodococcus sp. strain TE1 were constructed in a Rhodococcus-Escherichia coli shu...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.61.5.2061-2065.1995
更新日期:1995-05-01 00:00:00
abstract::Chromohalobacter salexigens DSM 3043 can grow on N,N-dimethylglycine (DMG) as the sole C, N, and energy source and utilize sarcosine as the sole N source under aerobic conditions. However, little is known about the genes and enzymes involved in the conversion of DMG to sarcosine in this strain. In the present study, g...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01186-20
更新日期:2020-08-18 00:00:00
abstract::Most associations between animals and their gut microbiota are dynamic, involving sustained transfer of food-associated microbial cells into the gut and shedding of microorganisms into the external environment with feces, but the interacting effects of host and microbial factors on the composition of the internal and ...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01442-15
更新日期:2015-09-01 00:00:00
abstract::Stachybotrys atra is the etiologic agent of stachybotryotoxicosis, and this fungus and its trichothecene mycotoxins were recently implicated in an outbreak of unexplained illness in homes. S. atra was grown on sterile rice, autoclaved, dried, and then aerosolized by acoustic vibration. The distribution of particles (m...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.53.6.1370-1375.1987
更新日期:1987-06-01 00:00:00
abstract::This is the first report on the fate of enterohemorrhagic Escherichia coli O157:H7 in simulated human colonic conditions. The pathogen was progressively eliminated from the bioreactor and did not modify the major populations of resident microbiota. The coadministration of the Saccharomyces cerevisiae CNCM I-3856 probi...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.03303-12
更新日期:2013-02-01 00:00:00
abstract::Previously, we successfully cloned a d-cycloserine (d-CS) biosynthetic gene cluster consisting of 10 open reading frames (designated dcsA to dcsJ) from d-CS-producing Streptomyces lavendulae ATCC 11924. In this study, we put four d-CS biosynthetic genes (dcsC, dcsD, dcsE, and dcsG) in tandem under the control of the T...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.02187-15
更新日期:2015-11-01 00:00:00
abstract::Pathogens may reach agricultural soils through application of animal manure and thereby pose a risk of contaminating crops as well as surface and groundwater. Treatment and handling of manure for improved nutrient and odor management may also influence the amount and fate of manure-borne pathogens in the soil. A study...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.02506-12
更新日期:2013-01-01 00:00:00
abstract::Genome analysis revealed the existence of a putative transcriptional regulatory system governing CO metabolism in Thermococcus onnurineus NA1, a carboxydotrophic hydrogenogenic archaeon. The regulatory system is composed of CorQ with a 4-vinyl reductase domain and CorR with a DNA-binding domain of the LysR-type transc...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.03019-14
更新日期:2015-03-01 00:00:00
abstract::A model conditional-suicide system to control genetically engineered microorganisms able to degrade substituted benzoates is reported. The system is based on two elements. One element consists of a fusion between the promoter of the Pseudomonas putida TOL plasmid-encoded meta-cleavage pathway operon (P(m)) and the lac...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.57.5.1504-1508.1991
更新日期:1991-05-01 00:00:00
abstract::A vineyard isolate of the yeast Saccharomyces cerevisiae, UCD932, was identified as a strain producing little or no detectable hydrogen sulfide during wine fermentation. Genetic analysis revealed that this trait segregated as a single genetic determinant. The gene also conferred a white colony phenotype on BiGGY agar ...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01666-10
更新日期:2010-12-01 00:00:00
abstract::The production of biofuels from lignocellulose yields a substantial lignin by-product stream that currently has few applications. Biological conversion of lignin-derived compounds into chemicals and fuels has the potential to improve the economics of lignocellulose-derived biofuels, but few microbes are able both to c...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.01313-17
更新日期:2017-08-31 00:00:00
abstract::Hybrubins are "unnatural" alkaloids with the same 4'-methoxy-2,2'-bipyrrole-5'-methine moiety found in prodiginines and a different ring derived from tetramic acids. Here, we demonstrated that RedH, a homologue of prodigiosin synthetase PigC, was responsible for the biosynthesis of hybrubins A and B in Streptomyces li...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.02331-19
更新日期:2020-01-07 00:00:00
abstract::Thiosphaera pantotropha is capable of simultaneous heterotrophic nitrification and aerobic denitrification. Consequently, its nitrification potential could not be judged from nitrite accumulation, but was estimated from complete nitrogen balances. The maximum rate of nitrification obtained during these experiments was...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.54.11.2812-2818.1988
更新日期:1988-11-01 00:00:00
abstract::The oxidation of fluorene, a polycyclic hydrocarbon which is not a substrate for fungal lignin peroxidase, was studied in liquid cultures of Phanerochaete chrysosporium and in vitro with P. chrysosporium extracellular enzymes. Intact fungal cultures metabolized fluorene to 9-hydroxyfluorene via 9-fluorenone. Some conv...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/AEM.62.5.1788-1792.1996
更新日期:1996-05-01 00:00:00
abstract::Phylogeny and the distribution of symbiotic bacteria in the mixed segment of the wood-eating termite Nasutitermes takasagoensis (Shiraki) were studied. Bacterial 16S rRNA genes (rDNA) were amplified from the mixed segment of the gut by PCR, and two kinds of sequences were identified. The phylogenetic tree was construc...
journal_title:Applied and environmental microbiology
pub_type: 杂志文章
doi:10.1128/aem.66.5.2199-2207.2000
更新日期:2000-05-01 00:00:00