scholarly journals Identification and Classification of bcl Genes and Proteins of Bacillus cereus Group Organisms and Their Application in Bacillus anthracis Detection and Fingerprinting

2009 ◽  
Vol 75 (22) ◽  
pp. 7163-7172 ◽  
Author(s):  
Tomasz A. Leski ◽  
Clayton C. Caswell ◽  
Marcin Pawlowski ◽  
David J. Klinke ◽  
Janusz M. Bujnicki ◽  
...  

ABSTRACT The Bacillus cereus group includes three closely related species, B. anthracis, B. cereus, and B. thuringiensis, which form a highly homogeneous subdivision of the genus Bacillus. One of these species, B. anthracis, has been identified as one of the most probable bacterial biowarfare agents. Here, we evaluate the sequence and length polymorphisms of the Bacillus collagen-like protein bcl genes as a basis for B. anthracis detection and fingerprinting. Five genes, designated bclA to bclE, are present in B. anthracis strains. Examination of bclABCDE sequences identified polymorphisms in bclB alleles of the B. cereus group organisms. These sequence polymorphisms allowed specific detection of B. anthracis strains by PCR using both genomic DNA and purified Bacillus spores in reactions. By exploiting the length variation of the bcl alleles it was demonstrated that the combined bclABCDE PCR products generate markedly different fingerprints for the B. anthracis Ames and Sterne strains. Moreover, we predict that bclABCDE length polymorphism creates unique signatures for B. anthracis strains, which facilitates identification of strains with specificity and confidence. Thus, we present a new diagnostic concept for B. anthracis detection and fingerprinting, which can be used alone or in combination with previously established typing platforms.

1999 ◽  
Vol 65 (7) ◽  
pp. 3226-3228 ◽  
Author(s):  
H.-J. Bach ◽  
D. Errampalli ◽  
K. T. Leung ◽  
H. Lee ◽  
A. Hartmann ◽  
...  

ABSTRACT A pair of primers and a gene probe for the amplification and detection of the Bacillus cereus neutral protease gene (NPRC) were developed. Specificity for the npr genes of theB. cereus group members B. cereus, B. mycoides, and B. thuringiensis was shown. Restriction polymorphism patterns of the PCR products confirmed the presence of the NPRC gene in all three species.


2007 ◽  
Vol 19 (1) ◽  
pp. 298
Author(s):  
S. Senbon ◽  
S.-I. Suzuki ◽  
D.-I. Fuchimoto ◽  
M. Iwamoto ◽  
T. Kawarasaki ◽  
...  

The amelogenin (AMEL) gene exists on both X and Y chromosomes in various mammalian species. The non-coding region of this gene is different between X and Y chromosomes. The use of this gene has made sex determination much less complicated, since only one pair of primers is required to amplify the different size fragments of the AMEL gene. Therefore, AMEL had been successfully used to determine the sex in cattle, sheep, and humans. The difference of AMEL genomic sequences between X and Y chromosomes has also been found in pig. In this study, we designed primers that identified AMEL of both chromosomes. The amplicons were isolated and sequenced, and showed a length polymorphism characteristic for the X and Y chromosome in pigs. Furthermore we examined whether a single oocyte or embryo could be sexed. Genomic DNA samples were collected from various breeds of pigs (European breeds: Landrace, Large White, Duroc, Berkshire; Chinese breeds: Meishan, Jinhua). DNA was extracted from ears, tails, or leukocytes using the salting-out method and then dissolved in TE buffer. We used one set of primers for amplifying the pig AMEL gene. The polymerase chain reaction (PCR) procedure was performed with initial denaturation at 94�C for 2 min, followed by 40 cycles of one denaturation step at 98�C for 10 s, primer annealing at 60�C for 30 s, and primer extension at 72�C for 30 s in 20 �L of reaction mixture containing 50 ng genomic DNA. The PCR products were electrophoresed and documented. Some amplicons were isolated and sequenced, and showed a length polymorphism characteristic for the X and Y chromosome in every breed. Next, we tried sexing of pig oocytes and embryos. Cumulus–oocyte complexes (COCs) were aspirated from ovaries recovered from prepubertal gilts. COCs were matured in modified NCSU-37 medium for 44 h, fertilized in vitro, and then cultured in PZM5. The pre-implantation embryos were sampled at 1, 2, 3, 4, and 5–6 days after insemination. Day 1–4 embryos were treated in 5 �L of lysis solution; whole solution were used for subsequent PCR. After Day 5–6 of insemination, only blastocysts were treated in 20 �L of lysis solution, and 5 �L were used for PCR. GV oocytes and electro-activated embryos were sampled as controls. PCR amplification yielded the expected 480-bp and 301-bp products. Male pigs in all breeds are expected to show 2 bands (480 bp and 301 bp), whereas all females, one band only (480 bp). The comparison of AMEL gene DNA sequences among pig breeds showed over 99% homology for the PCR products in both the AMEL-X and the AMEL-Y gene, except for several single-base substitutions. Within GV oocytes and electro-activated embryos, 98% and 96–99% of those examined displayed one band of 480 bp. In IVF groups, 49–55% of those embryos had 2 bands, with no difference between the number of embryos displaying one band and two bands. In conclusion, our findings show that the PCR assay based on the AMEL gene is reliable for sex identification in every pig breed. The advantage of this assay is its capability of identifying sex using a genomic DNA sequence as small as that contained within a single cell such as an oocyte.


2004 ◽  
Vol 186 (11) ◽  
pp. 3531-3538 ◽  
Author(s):  
Leyla Slamti ◽  
Stéphane Perchat ◽  
Myriam Gominet ◽  
Gislayne Vilas-Bôas ◽  
Agnès Fouet ◽  
...  

ABSTRACT Bacillus thuringiensis, Bacillus cereus, and Bacillus anthracis are closely related species belonging to the Bacillus cereus group. B. thuringiensis and B. cereus generally produce extracellular proteins, including phospholipases and hemolysins. Transcription of the genes encoding these factors is controlled by the pleiotropic regulator PlcR. Disruption of plcR in B. cereus and B. thuringiensis drastically reduces the hemolytic, lecithinase, and cytotoxic properties of these organisms. B. anthracis does not produce these proteins due to a nonsense mutation in the plcR gene. We screened 400 B. thuringiensis and B. cereus strains for their hemolytic and lecithinase properties. Eight Hly− Lec− strains were selected and analyzed to determine whether this unusual phenotype was due to a mutation similar to that found in B. anthracis. Sequence analysis of the DNA region including the plcR and papR genes of these strains and genetic complementation of the strains with functional copies of plcR and papR indicated that different types of mutations were responsible for these phenotypes. We also found that the plcR genes of three B. anthracis strains belonging to different phylogenetic groups contained the same nonsense mutation, suggesting that this mutation is a distinctive trait of this species.


Genetics ◽  
1998 ◽  
Vol 150 (4) ◽  
pp. 1605-1614
Author(s):  
Junyuan Wu ◽  
Konstantin V Krutovskii ◽  
Steven H Strauss

Abstract We examined mitochondrial DNA polymorphisms via the analysis of restriction fragment length polymorphisms in three closely related species of pines from western North America: knobcone (Pinus attenuata Lemm.), Monterey (P. radiata D. Don), and bishop (P. muricata D. Don). A total of 343 trees derived from 13 populations were analyzed using 13 homologous mitochondrial gene probes amplified from three species by polymerase chain reaction. Twenty-eight distinct mitochondrial DNA haplotypes were detected and no common haplotypes were found among the species. All three species showed limited variability within populations, but strong differentiation among populations. Based on haplotype frequencies, genetic diversity within populations (HS) averaged 0.22, and population differentiation (GST and θ) exceeded 0.78. Analysis of molecular variance also revealed that >90% of the variation resided among populations. For the purposes of genetic conservation and breeding programs, species and populations could be readily distinguished by unique haplotypes, often using the combination of only a few probes. Neighbor-joining phenograms, however, strongly disagreed with those based on allozymes, chloroplast DNA, and morphological traits. Thus, despite its diagnostic haplotypes, the genome appears to evolve via the rearrangement of multiple, convergent subgenomic domains.


LWT ◽  
2021 ◽  
Vol 140 ◽  
pp. 110853
Author(s):  
Yiying Huang ◽  
Steve H. Flint ◽  
Shubo Yu ◽  
Yu Ding ◽  
Jon S. Palmer

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 4
Author(s):  
Oleg S. Alexandrov ◽  
Olga V. Razumova ◽  
Gennady I. Karlov

5S rDNA is organized as a cluster of tandemly repeated monomers that consist of the conservative 120 bp coding part and non-transcribed spacers (NTSs) with different lengths and sequences among different species. The polymorphism in the 5S rDNA NTSs of closely related species is interesting for phylogenetic and evolutional investigations, as well as for the development of molecular markers. In this study, the 5S rDNA NTSs were amplified with universal 5S1/5S2 primers in some species of the Elaeagnaceae Adans. family. The polymerase chain reaction (PCR) products of five Elaeagnus species had similar lengths near 310 bp and were different from Shepherdia canadensis (L.) Nutt. and Sh. argentea (Pusch.) Nutt. samples (260 bp and 215 bp, respectively). The PCR products were cloned and sequenced. An analysis of the sequences revealed that intraspecific levels of NTS identity are high (approximately 95–96%) and similar in the Elaeagnus L. species. In Sh. argentea, this level was slightly lower due to the differences in the poly-T region. Moreover, the intergeneric and intervarietal NTS identity levels were studied and compared. Significant differences between species (except E. multiflora Thunb. and E. umbellata Thunb.) and genera were found. Herein, a range of the NTS features is discussed. This study is another step in the investigation of the molecular evolution of Elaeagnaceae and may be useful for the development of species-specific DNA markers in this family.


2007 ◽  
Vol 70 (12) ◽  
pp. 2774-2781 ◽  
Author(s):  
I-CHEN YANG ◽  
DANIEL YANG-CHIH SHIH ◽  
JAN-YI WANG ◽  
TZU-MING PAN

Members of the Bacillus cereus group may produce diarrheal enterotoxins and could be potential hazards if they enter the food chain. Therefore, a method capable of detecting all the species in the B. cereus group rather than B. cereus alone is important. We selected nhe as the target and developed a real-time PCR assay to quantify enterotoxigenic strains of the B. cereus group. The real-time PCR assay was evaluated with 60 B. cereus group strains and 28 others. The assay was also used to construct calibration curves for different food matrices and feces. The assay has an excellent quantification capacity, as proved by its linearity (R2 > 0.993), wide dynamic quantification range (102 to 107 CFU/g for cooked rice and chicken, 103 to 107 CFU/ml for milk, and 104 to 107 CFU/g for feces), and adequate relative accuracy (85.5 to 101.1%). For the low-level contaminations, a most-probable-number real-time PCR assay was developed that could detect as low as 100 CFU/ml. Both assays were tested with real food samples and shown to be considerably appropriate for B. cereus group detection and quantification.


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