As expected, putative F pili were not detected in the single biof

As expected, putative F pili were not detected in the single biofilms formed by traA-negative EAEC strain 17-2 (Figure 6C). Curli fibers were occasionally detected in biofilms formed by EAEC strain 340-1 mainly during single biofilm formation (Figure 6D). Figure 6 SEM micrographs showing the biofilms developed by EACF 205 and EAEC strains. A- Single biofilm formed by traA-positive EAEC strain 340-1. Arrows indicate the putative F pili. Note that pili were not limited to the polar region of the bacteria and, at www.selleckchem.com/products/pf-06463922.html times, were viewed to intertwine forming thicker structures. B- Enhanced biofilm developed by coculture of EACF

205 and traA-positive EAEC strain 340-1. White arrowhead indicates the incipient formation of curli fibers and arrows indicate the putative F pili. C- Single biofilm developed by traA-negative prototype strain 17-2. D- Single biofilm formed by EAEC 340-1 displaying curli fibers (white arrowheads). Curli fibers were shown to mediate cell-cell adherence and interaction to abiotic surface. Arrow indicates a putative F pilus. Zinc effect on single biofilms produced by typical EAEC strains isolated from asymptomatic and diarrheic children

In order to evaluate the role of putative F pili on biofilm formation, 43 AAF (I and II)-negative EAEC strains, FK228 including 24 strains recovered from diarrhea and 19 recovered from healthy children (control group), had their ability to form biofilms challenged by zinc. Additional genetic characterization (Table 1) showed that two of these strains were Anacetrapib positive for AAF/III and that six strains harbored adhesion factors associated with other E. coli pathotypes (Figure 7). Employing the average reduction presented by traA-positive EAEC prototype strain 042 (41.1%) as a cut-off line, the assays showed that the EAEC strains were sorted into two groups plotted in opposite positions (Figure 8).

Most of the strains isolated from diarrhea positioned above the cut-off line and thus were considered to form biofilms sensitive to zinc. Specifically, sixteen of 24 (66%) diarrhea-isolated strains were ranked above the cut-off line. In addition, seven of 10 strains recovered from persistent diarrhea formed biofilms sensitive to zinc (P < 0.01 comparing with control group). In contrast, 17 of 19 (89%) strains isolated from healthy children formed biofilms resistant to zinc (P < 0.001 when compared with diarrheic group). Figure 7 Characterization of the typical EAEC strains which were tested for biofilm sensitivity to zinc. Most of the strains isolated from diarrhea positioned above the cut-off value and thus were considered to form biofilms sensitive to zinc.

J Phys

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J Phys

Chem C 2012, 116:11426–11433.CrossRef 31. Lee JH, Cho S, Roy A, Jung HT, Heeger AJ: Enhanced diode characteristics of organic solar cells check details using titanium suboxide electron transport layer. Appl Phys Lett 2010, 96:163303.CrossRef 32. O’reagan BC, Durrant JR: Kinetic and energetic paradigms for dye-sensitized solar cells: moving from the ideal to the real. Acc Chem Res 2009, 42:1799–1808.CrossRef 33. Park DW, Jeong Y, Lee J, Lee J, Moon SH: Interfacial charge-transfer loss in dye-sensitized solar cells. J Phys Chem C 2013, 117:2734–2739.CrossRef 34. Kim C, Kim J, Choi H, Nahm C, Kang S, Lee S, Lee B, Park B: The effect of TiO 2 -coating layer on the performance in nanoporous ZnO-based dye-sensitized solar cells. J Power Sources 2013, 232:159–164.CrossRef 35. Choi H, Kim J, Nahm C, Kim C, Nam S, Kang J, Lee B, Hwang T, Kang S, Choi DJ, Kim YH, Park B: The role of ZnO-coating-layer thickness on the recombination in CdS quantum-dot-sensitized solar cells. Nano Energy 2013, 2:1218–1224.CrossRef 36. Kim J, Choi H, Nahm C, Kim C, Kim JI, Lee W, Kang S, Lee B, Hwang T, Park

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paper: toward highly efficient quantu m-dot- and dye-sensitized solar cells. Curr Appl Phys 2013, 13:S2-S13.CrossRef 40. Goes MS, Joanni E, Muniz EC, Savu R, Habeck TR, Bueno PR, Fabregat-Santiago F: Impedance spectroscopy analysis of the effect of TiO 2 blocking layers on the efficiency of dye sensitized solar cells. J Phys Chem C 2012, 116:12415–12421.CrossRef 41. Fabregat-Santiago F, Garcia-Belmonte JB, Boschloo G, Hagfeldt A: Influence of electrolyte in transport and recombination in dye-sensitized solar cells studied by impedance spectroscopy. Sol Energ Mat Sol C 2005, 87:117–131.CrossRef 42. Fabregat-Santiago F, Bisquert J, Palomares E, Otero L, Kuang D, Zakeeruddin SM, Grätzel M: Correlation between photovoltaic performance and impedance spectroscopy of dye-sensitized solar cells based on ionic liquids. J Phys Chem C 2007, 111:6550–6560.CrossRef Competing interests The authors declare that they have no competing interests. Authors’ contributions CK carried out the overall scientific experiment and drafted the manuscript. HC and JIK performed the FE-SEM measurements. SL carried out the analysis of electrochemical impedance spectra. JK and SK participated in the manuscript revision.

melitensis cells and fractions Res Microbiol 1996,147(3):145–157

melitensis cells and fractions. Res Microbiol 1996,147(3):145–157.PubMedCrossRef 44. Cloeckaert A, Jacques I, Grillo MJ, Marin CM, Grayon M, Blasco JM, Verger JM: Development and evaluation as vaccines in mice of Brucella melitensis Rev.1 single and double deletion mutants of the bp26 and omp31 genes coding for antigens of diagnostic significance in ovine brucellosis. Vaccine 2004,22(21–22):2827–2835.PubMedCrossRef 45. Hydroxychloroquine in vitro Cloeckaert A, Verger JM, Grayon M, Grepinet O: Restriction site polymorphism of the genes encoding

the major 25 kDa and 36 kDa outer-membrane proteins of Brucella . Microbiology 1995,141(Pt 9):2111–2121.PubMedCrossRef 46. Kumar S, Nei M, Dudley J, Tamura K: MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 2008,9(4):299–306.PubMedCrossRef 47. Whatmore AM, Perrett LL, MacMillan AP: Characterisation of the genetic diversity of Brucella by multilocus sequencing. BMC Microbiol 2007, 7:34.PubMedCrossRef 48. Huynh LY, Van Ert MN, Hadfield T, Probert WS, Bellaire BH, Dobson M, Burgess RJ, Weyant RS, Popovic T, Zanecki S, et al.: Multiple Locus Variable Number Tandem Repeat (VNTR) Analysis (MLVA) of Brucella spp. identifies species specific Copanlisib markers and insights into phylogenetic relatiohsips. National Institute of Allergy and Infectious Disease, NIH: Frontiers in Research 2008.

49. Tiller RV, De BK, Boshra M, Huynh LY, Van Ert MN, Wagner DM, Klena J, MT S, El-Shafie SS, Keim P, et al.: Comparison of two multiple locus variable number tandem repeat (VNTR) analysis (MLVA) methods for molecular strain typing human Brucella melitensis isolates from the Middle East. Journal of Clinical Microbiology 2009,47(7):2226–2231.PubMedCrossRef Authors’ contributions SG, SCB, AJ, JB CC participated in the clinical

diagnosis, isolation and initial characterization of the strain BO2 and also contributed in drafting the manuscript. RVT, JEG, DRL, ARH, only BKD performed both biochemical and molecular studies and drafted the manuscript. All authors read and approved the final manuscript.”
“Background Enteropathogenic Escherichia coli (EPEC) is an important cause of infantile diarrhea worldwide and particularly in developing countries [1, 2]. EPEC strains adhere intimately to the brush border of the intestinal epithelium and initiate a complex signaling cascade by virtue of a chromosomal pathogenicity island, the locus for enterocyte effacement (LEE) (reviewed by Clarke et al [3]). EPEC strains also carry an EPEC adherence factor (EAF) plasmid, which encodes the bundle forming pili, a plasmid-encoded regulator, and other putative virulence genes. The majority of EPEC isolates belong to classic serotypes derived from 12 classical O serogroups (O26, O55, O86, O111, O114, O119, O125, O126, O127, O128, O142, and O158) [4, 5].

pseudomallei, especially given the noted

inaccuracies and

pseudomallei, especially given the noted

inaccuracies and high background of indirect hemagglutination assays [29]. Little work has examined the seropositive rates in Australia, selleck chemicals but two studies in Northern Queensland returned rates of 2.5-5.7% [30, 31]. The high clinical relevance of B. pseudomallei expressing type B or B2 O-antigen, along with the new apparent abundance of these types in Australian near-neighbors, suggest similar exposures may result in false positive diagnoses, as is likely the case in Thailand. These near-neighbor species are avirulent, B. mallei excepted, and as such are not limited to the biosafety regulations that B. pseudomallei is as a biosafety level 3 (BSL-3) organism. Few laboratories worldwide are properly equipped to handle BSL-3 work and so the finding of B. pseudomallei type LPS in these non-pathogenic Burkholderia species will allow many additional laboratories the opportunity to

work towards vaccine development for melioidosis. Conclusions B. thailandensis type A O-antigen has been used with some success to vaccinate mice against B. pseudomallei[7–10]. This O-antigen is indistinguishable between these two species in backbone and side group modifications [12, 16, 22]. Given the high genetic similarity between types B and B2 in near-neighbors and B. pseudomallei, it is likely at least one species will be identical in backbone and side group modifications, selleck compound as well. In such a case, it is possible that particular strain or strains will confer comparable host immunity upon subsequent challenge with type B or B2 B. pseudomallei in much the same way B. thailandensis protects against type A B. pseudomallei challenge. Methods Bacterial strains, DNA, and LPS preparations A total of 113 strains of B. pseudomallei near-neighbors were used in this study. These included 23 B. mallei, 4 B. oklahomensis, 12 B. thailandensis, 5 B. thailandensis-like

species, 44 B. ubonensis, and other 25 Burkholderia strains (Tables 1 and Additional file 1: Table S1). Species identification was made on the basis of recA and 16S rRNA sequences [17, 18]. B. pseudomallei strains K96243, 576, MSHR840, and MSHR1655 were used as references for the O-antigen types A, B, B2, and rough, respectively [11]. All strains were grown on Luria-Bertani Tacrolimus (FK506) (LB) agar (Difco, USA) for DNA and LPS extractions. DNA was extracted using the Wizard Genomic DNA Purification Kit (Promega, Madison, WI, USA), according to the manufacturer’s instructions. LPS was extracted using whole-cell lysis according to a previous method [11, 20] and separated by SDS-PAGE (Invitrogen, USA). PCR analysis Strains were genotyped for B. pseudomallei O-antigen types via multiplex-SYBR-Green real-time PCR in accordance with as previously reported [11]. As the previously published sequences did not detect all near-neighbors expressing type A, this primer pair was redesigned.

P-values < 0 05 were considered statistically significant unless

P-values < 0.05 were considered statistically significant unless stated otherwise. Results Dengue virus serotypes and genetic diversity The sequence data investigated in this study represent genome-wide coding sequences of DENV (n = 260 isolates) from different countries. While samples of DENV serotype 1, 2 and 3 are derived from both Asian and American countries, the collections of serotype 4 are limited to Cetuximab datasheet Central and South American countries (Additional file 1). The sequences of serotype 4 available

by the GRID project are only from Americas. Thus, serotype 1, 2 and 3 sequences represented geographically more diverse samples unlike the serotype 4 sequences. Accordingly, the genetic diversity observed within serotype 1, 2 or 3 samples was higher than that of serotype 4 samples. The average number of nucleotide differences ranges from 168 to 492 among the samples. The nucleotide diversity (π) is ~ 0.04 among samples

belonging to serotype 1, 2 and 3 and 0.01 for serotype 4. The neighbor-joining phylogenetic tree analyses of the coding sequences also show that samples of serotype 1, 2 and 3 are associated with two groups corresponding to Asian and American DENV isolates whereas those of serotype 4 represent a monophyletic group (Figure  1). However, diversity within serotype 4 is also evident that corresponds to the Central and South American DENV isolates, respectively. More than 80% of the nucleotides in the coding sequences of

the DENV genome remain fixed. Although this suggests that these isolates RG7422 in vitro are genetically very similar, about 1500 to 2000 sites (15% – 18% of the total sites) reflect nucleotide substitutions among them across serotypes. Furthermore, the relative rate of transition versus transversion substitutions (Additional file 2) also suggests that the nucleotide substitution patterns are biased towards excess transitions over transversions among the samples in each serotype. Figure 1 Geographical structuring within dengue virus serotypes evident from phylogenetic (neighbor-joining tree) analysis. Asian isolates (red) and American isolates (green) are compared for serotypes 1, 2 and 3. For serotype 4, isolates from Central America (light green) are compared with isolates from South America (dark green). Methocarbamol The unit of branch length is shown for each tree. Synonymous and non-synonymous substitutions The counts of synonymous and non-synonymous substitution sites are shown in Table  1, and indicate that nearly 80% of all the substitutions in the DENV genome are synonymous. The number of synonymous and non-synonymous changes at 1st, 2nd and 3rd codon positions of each serotype is also shown in Table  1. It shows that the number of silent changes at the 1st position of codons among the samples of serotypes 1, 2 and 3 are similar to that of serotype 4, in spite of differences in the overall nucleotide diversity among the serotypes.

S aureus strains used in this study were purchased from ATCC (Ma

S. aureus strains used in this study were purchased from ATCC (Manassas, Virginia, USA) and clinical isolates were provided by Dr. M.J. Ferraro (Microbiology Labs, Massachusetts General Hospital, Boston, MA, USA) (Table 1). All strains were routinely cultured in BHI agar or broth at 37°C. The isolates were grown in presence of penicillin disks to induce and enhance

β-lactamase production as required. For the disk diffusion assays, Mueller-Hinton II agar plates were incubated at 35°C. Table 1 S. aureus isolates used in the study and their β-lactamase genotype and phenotype # S. aureus isolate β-lactamase genotype*& (‘blaZ’ PCR) β-lactamase phenotype by nitrocefin disk test 1 29213 Positive + 2 25923 Negative – 3 75391-09 Positive – 4 W5337 Negative – 5 W53156 Gemcitabine clinical trial Positive – 6 AI5070237 Positive + 7 AI5081845 Positive – 8 159570-08 Positive – 9 H30876 Positive – 10 32455-09 Positive$ – 11 HIP12052 BMS-907351 Positive – 12 AI5090298 Positive – 13 F33263-2 Positive – 14 AI5090297 Positive – 15 HIP11033 Positive – 16 HIP11353 Positive$

– 17 158390-08 Positive$ – 18 F52670 Positive + 19 H63189 Positive + 20 M24125 Positive + 21 F20358.1 Negative – 22 H67147.3 Positive – 23 M60028 Negative – 24 KI58249.2 Unknown – 25 M69678 Negative – 26 X33116 Positive – 27 F29916-2 Positive click here – S. aureus strains 29213 (#1) and 25923 (#2) were obtained from ATCC and the S. aureus clinical isolates (#3 – #27) were provided by Dr. Mary Jane Ferraro (Microbiology Labs, Massachusetts General Hospital, Boston, MA, USA). Isolate numbers (e.g. #1 for 29213, etc) are used to refer to the different isolates throughout the study. *The β-lactamase genotype was determined by PCR to detect blaZ (staphylococcal β-lactamase gene). Genotype data for isolates #3 – #15 was kindly provided by Dr. Robert L. Skov, Statens Serum Institut (R. L. Skov, unpublished results) and for #16 – #27

by Dr. Mary Jane Ferraro. &All isolates are MSSA. $Special comment – blaZ contained Stop codon or deletion (so non-functional) (R. L. Skov, unpublished results). Nitrocefin disk test to determine β-lactamase production was performed as described in Methods. Development of orange colour uniformly, similar to positive control #1, was taken as positive reaction, indicated by ‘+’ symbols. ‘-’ denotes negative result (i.e. no colour change). The results are representative of three independent experiments, which gave consistent results. β-LEAF synthesis β-LEAF was synthesized as previously described [49]. Briefly, the chloro- group on 7-amino-3-chloromethyl-3-cephem-4-carboxylic acid p-methoxybenzyl ester (ACLE) was substituted with 4-aminothiophenol with the help of 4-methylmorpholine.

1), S sanguinis SK36 (NC_009009 1) [46], S mitis B6 (NC_013853

1), S. sanguinis SK36 (NC_009009.1) [46], S. mitis B6 (NC_013853.1) [47] and S. oralis Uo5 (NC_015291.1) [48] are shown. In S. pneumoniae the complete locus includes 18 ORFs, some of them conserved in the other species [23]. The two neuraminidases (NanA and NanB) are in pink, while the three different transporters (two ABC transporters and one PTS) are in blue. The phosphosugar binding transcriptional regulator is shown in grey and the metabolic enzymes involved in sialic acid metabolism are in orange. The homologous regions in green refer to DNA identity above 50% and represent orthology of genes. The black arrows placed upstream of SPG1601, SPG1599, SPG1593, and Mdm2 antagonist SPG1583 represent the promoters of the regulon [21].

The gene numeration is detailed in Table 1. B. Schematic representation of the first steps in sialic acid catabolism. The Bortezomib molecular weight first step involves the N-acetylneuraminate lyase SPG1585 which removes a pyruvate group from sialic acid, yielding N-acetylmannosamine (ManNAc). Subsequently, an N-acetylmannosamine kinase (SPG1584) adds a phosphate group to ManNAc, resulting in the formation of N-acetylmannosamine-6-phosphate (ManNAc-6P). SPG1593 encodes an N-acetylmannosamine-6-phosphate 2-epimerase, which transforms ManNAc-6P into N-acetylglucosamine-6-phosphate (GlcNAc-6P) [15, 16]. Table 1 List of gene annotation in the nanAB locus Annotation Figure 1A* S. pneumoniae TIGR4 S. pneumoniae

G54 S. mitis B6 S. oralis Uo5 S. gordonii V288 S. sanguinis SK36 Regulator 1 SP1674 SPG1583 smi0612

SOR0560 SGO0127 SSA0081 Hypothetical protein 2 – - smi0610 SOR0559 SGO0126 SSA0080 N-acetylmannosamine kinase 3 SP1675 SPG1584 smi0609 SOR0558 SGO0125 SSA0079 N-acetylneuraminate lyase 4 SP1676 SPG1585 smi0608 SOR0557 SGO0124 SSA0078 hypothetical protein 5 SP1677 SPG1586 smi0607 SOR0556 – - hypothetical protein 6 SP1679 – - – - – hypothetical protein 7 SP1680 SPG1588 smi0606 SOR0555 – - satA ABC transporter permease 8 SP1681 SPG1589 smi0605 SOR0553 – - satB ABC transporter permease 9 SP1682 SPG1590 smi0604 SOR0552 – - satC ABC transporter substrate-binding PRKD3 protein 10 SP1683 SPG1591 smi0603 SOR0550 – - PTS system, IIBC components 11 SP1684 SPG1592 – - – - NanE, ManAc-6P 2-epimerase 12 SP1685 SPG1593 smi0602 SOR0549 SGO0118 SSA0071 oxidoreductase 13 SP1686 SPG1594 – - SGO0123 SSA0077 NanB neuraminidase 14 SP1687 SPG1595 – - – - ABC transporter permease 15 SP1688 SPG1596 – - SGO0122 SSA0076 ABC transporter permease 16 SP1689 SPG1597 – - SGO0121 SSA0075 ABC transporter substrate-binding protein 17 SP1690 SPG1598 – - SGO0120 SSA0074 hypothetical protein 18 SP1691 SPG1599 – - SGO0119 SSA0073 NanA neuraminidase 19 SP1693 SPG1600 smi0601 SOR0548 – - Acetyl xylan esterase 20 SP1694 SPG1601 smi0600 SOR0547 – SSA0070 * numbers as in Figure 1A. Figure 2 Metabolic utilisation 0f ManNAc and NeuNAc by S. gordonii, S. mitis and S. pneumoniae . S. gordonii V288 (A), S. pneumoniae G54 (B), and S.

The alignment of about 70 ITS1-5 8 S-ITS2

T magnatum seq

The alignment of about 70 ITS1-5.8 S-ITS2

T. magnatum sequences retrieved from the GenBank database highlighted a high level of conservation of ITS regions in this species (0/186 nt for ITS1 and 2/217 for ITS2), higher than those found in other truffle species [32–34]. A single primer/probe set was selected for both the ITS1 and the ITS2 region (Table 2) based on in silico analyses of their composition, Tm, PCR-impairing structure formation and specificity against the sequences in GenBank. Both of the primer pairs selected produced specific amplicons of the expected size for all the T. magnatum specimens considered in this study and gave no cross-reactions selleck chemicals llc with other fungal species under qualitative PCR conditions (Table 3).

Specificity of the probes was also confirmed (data not shown). However, the primers and probe designed from ITS1 were selected for the subsequent real-time PCR analyses, as they provided more efficient amplification (Figure 1). Indeed, the TmgITS1for-TmgITS1rev primer pair allowed detection of the specific amplicon down to dilutions of 1/1000 (0.1 ng of T. magnatum DNA mixed with 100 ng of non-target DNAs), ten fold lower than TmgITS2for-TmgITS2rev. The specificity of the ITS1 primer/probe set was also confirmed under real-time PCR conditions for all soil samples processed. Table 2 Primers and probes tested in this study Primer/Probe Sequence (5′-3′) Length (bp) Amplicon (bp) Target region GC (%) TmgITS1for GCGTCTCCGAATCCTGAATA 20 106 ITS1 50 TmgITS1rev ACAGTAGTTTTTGGGACTGTGC 22     45 TmgITS1prob TGTACCATGCCATGTTGCTT 20     45 TmgITS2for AAACCCACTCACGGAATCAC this website 20 99 ITS2 50 TmgITS2rev CGTCATCCTCCCAATGAAA 19     47 TmgITS2prob GTACCAAGCCACCTCCATCA 20     55 Table 3 Collection numbers and origin of the fungal materials used in this study Species Source1 CMI-Unibo2herbarium code Origin (Region, Country) Tuber magnatum Pico d.A CMI-Unibo 1182 Molise, Italy Tuber magnatum Pico d.A CMI-Unibo 3990 Emilia Romagna, Italy Tuber magnatum Pico Miconazole d.A CMI-Unibo 4059 Marche, Italy Tuber

magnatum Pico d.A CMI-Unibo 4090 Romania Tuber magnatum Pico d.A CMI-Unibo 4152 Emilia Romagna, Italy Tuber aestivum Vittad. d.A CMI-Unibo 1571 Marche, Italy Tuber asa Tul. & C. Tul. d.A CMI-Unibo 2124 Veneto, Italy Tuber borchii Vittad. (type 1)3 d.A CMI-Unibo 2682 Sicily, Italy Tuber borchii Vittad. (type 2)3 d.A CMI-Unibo 2363 Veneto, Italy Tuber brumale Vittad. d.A CMI-Unibo 1547 Emilia Romagna, Italy Tuber dryophilum Tul. & C. Tul. d.A CMI-Unibo 1547 Emilia Romagna, Italy Tuber excavatum Vittad. d.A CMI-Unibo 1446 Emilia Romagna, Italy Tuber indicum Cooke and Massee d.A CMI-Unibo 1759 Yunnan, China Tuber macrosporum Vittad. d.A CMI-Unibo 1515 Emilia Romagna, Italy Tuber maculatum Vittad. M Tma1 Emilia Romagna, Italy Tuber melanosporum Vittad. M Tme4 Marche, Italy Tuber mesentericum Vittad. d.

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“Background The adjustability of magnetic properties of nanostructured magnets and magnetic nanocomposite systems is a crucial point in today’s research. In general, the magnetic properties of such systems depend on the used magnetic material, the shape of the nanostructures, and also on their mutual arrangement. Three-dimensional arrays of magnetic nanostructures are often a favorable composition also in terms of miniaturization. In three-dimensional systems, magnetic dipolar coupling between neighboring nanostructures has to be considered dependent on the distance between each other. Porous silicon is tunable in its morphology, and it is therefore a versatile host material for the incorporation of various materials into the pores. Not only the infiltration of molecules [1] or nanoparticles [2] but also the deposition of different metals [3] within the pores can be carried out. The deposition of magnetic materials results in a semiconducting/ferromagnetic nanocomposite with tunable magnetic properties.

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