Colonies were Trichostatin A chemical structure counted, tested by PCR to confirm species identity, and corrected for the dilution factor to calculate CFU per gram of stool/MLN/fecal contents. MLVA was performed

to confirm strain identity. PCR analysis to confirm species Stool samples from naïve mice and from mice treated for 2 days with ceftriaxone were examined for presence of E. faecium. The lowest dilutions of stool homogenates that contained well-separated selleck inhibitor colonies were chosen and each colony of that dilution (12–24 CFU/20 μl diluted stool homogenate) was tested by PCR for presence of the housekeeping gene ddl (encoding D-alanine, D-alanine ligase) using the E. faecium specific primers ddlF (5′-GAG ACA TTG AAT ATG CCT) and ddlR (5′-AAA AAG AAA TCG CAC CG) [43]. The colonies were directly diluted in 25-μl-volumes with HotStarTaq Master Mix (QIAQEN Inc., Valencia, CA). PCR’s were performed with a 9800 Fast Thermal Cycler (Applied GSK1838705A mw Biosystems, Foster City, CA) and the PCR amplification conditions were as follows: initial denaturation at 95°C for 15 min, followed by 10 touchdown cycles starting at 94°C for 30 s, 60°C for 30 s, and 72°C (the time depended on the size of the PCR product) with the annealing temperature decreasing by 1°C per cycle, followed by 25 cycles with an annealing temperature of 52°C. All primers used in this study were purchased from Isogen Life Science (IJselstijn, The Netherlands).

For mono infection, colonies obtained from stool (1, 3, 6, and 10 days after bacterial inoculation), MLN, and fecal contents from small bowel, cecum, and colon were examined to confirm species identity. Colonies were randomly picked and presence MycoClean Mycoplasma Removal Kit of the ddl gene, in case E1162 was inoculated, or the cat gene, in case E1162Δesp was inoculated, was assessed by PCR using primer pairs ddlF – ddlR and CmF (5′-GAA TGA CTT CAA AGA GTT TTA TG) – CmR (5′-AAA GCA TTT TCA GGT ATA GGT G) [21], respectively. When both strains

were inoculated simultaneously, all colonies from the lowest dilution with well-separated colonies were picked (3–28 CFU/20 μl diluted homogenate). Species identity and the number of E1162 and E1162Δesp were determined by multiplex PCR using primer pairs ddlF – ddlR and CmF – CmR. In PCR’s, a colony of E1162 and E1162Δesp was used as positive control and a colony of E. faecalis V583 [44] was used as negative control. MLVA to confirm strain identity For both mono infection and mixed infection, colonies obtained from stool (1, 3, 6, and 10 days after bacterial inoculation), MLN, and fecal contents from small bowel, cecum, and colon were randomly picked and MLVA was performed to confirm strain identity. MLVA was performed as described previously [45]. Histological examination Small bowel, cecum and colon tissue were fixed in 4% buffered formalin and embedded in paraffin. Four-micrometer-thick sections were stained with hematoxylin-eosin and analyzed.

In contrast, the tumor samples VX-680 ic50 expressed higher levels of the Ki67 proliferative marker and contained shorter telomeres than either non-cirrhotic or cirrhotic samples. There was no precise correlation find more between the level of hTERT expression measured by qRTPCR and the level of TA measured by the quantitative TRAP assay, suggesting that posttranscriptional modifications might participate to modulate TA during hepatocarcinogenesis. Additionally, there was no significant correlation between either hTERT expression or TA and telomere length. Conversely, Figure 1A shows that the shorter were the telomeres in sample sets, the higher were TA and hTERT expression in these samples. This conflicting data might be explained,

at least in part, by changes in regulating access of the telomere to the telomerase in liver cells, i.e. by changes in telomere proteins content. Accumulating evidence suggests that telomeric factors dysregulation is involved in cancer development as has been demonstrated in the maintenance of the tumor phenotype. To our knowledge, this study is the first which investigates the expression of the main telomere protective genes learn more in the main subtype of cirrhosis and HCC. Previously, Oh et al. demonstrated that expression of TRF1, TRF2 and TIN2 was gradually increased according to the progression of hepatocarcinogenesis in HBsAg positive individuals [36]. In this study, HBV-, HCV- and alcohol-associated

cirrhosis displayed significantly different distinct patterns of telomere protective factor expression, as compared with that of non-cirrhotic liver (Table 2). The 3 subtypes of cirrhosis possessed a specific

signature, with respect to telomere protective factor expression (Additional file 3: Table S3). Although the expression level of all the shelterin and non-shelterin telomere factors was not equally distributed between the 3 causes of cirrhosis (Additional file 3: Table S3), the telomere phenotype of HBV-associated-cirrhosis appeared different from that of the 2 other causes of the cirrhosis. When compared with non-cirrhotic liver, HBV-associated cirrhosis displayed a dramatic repression of all shelterin and non-shelterin factors except HMRE11A and RAD50. In contrast, the alterations in telomere factor expression between non-cirrhotic and cirrhotic samples were similar between HCV- and alcohol-associated cirrhosis. Accordingly, the expression pattern of all telomere factors, except TIN2 and HMRE11B, was identical between HCV- and alcohol-associated cirrhosis (Additional file 3: Table S3). These results suggest that cause-specific factors are involved in initiating telomere dysfunction in the liver. For example, HBV-associated cirrhosis displayed very low amounts of TRF2 that has been demonstrated to elicit telomere shortening ex vivo[37]. Whatever the cause, the levels of shelterin and non-shelterin telomere factors expression were not significantly different between cirrhotic and HCC samples (Figure 1B and Table 3).

Therefore, lymphoplasmacytic TIN with fibrosis and prominent IgG4-https://www.selleckchem.com/products/azd4547.html positive plasma cells seems to be a representative histopathologic feature of IgG4-RKD. Several kinds of glomerular lesions have been reported that overlap with those of typical lymphoplasmacytic TIN [11, 23, 24]. The most frequently reported lesion is membranous nephropathy (MN), and

three patients had this type of glomerulopathy in this study. In addition, 8 other patients had various glomerular lesions other than MN. Although the significance of glomerular lesions in IgG4-RKD is unclear now, careful attention should be paid to glomerular lesions in cases of IgG4-RKD. One of the important differential diagnoses in daily clinical practice is SS with TIN. selleck chemicals Some investigators still consider that Mikulicz’s disease and SS are the same disease because they have common clinical features such as hypergammaglobulinemia, salivary gland enlargement or dry symptoms. However, Mikulicz’s disease rarely has positive serum anti-SSA/Ro or SSB/La antibodies as seen in SS [39, 40], and has gradually been accepted as a representative IgG4-related disease. On the other hand, patients with SS seldom have elevated serum IgG4 levels. Moreover, although both diseases

have similar TIN in renal histology, IgG4 immunostaining is very useful to differentiate between them [39, 40]. Hence, IgG4-RKD is unlikely to be confused with SS. Considering the above-mentioned features of IgG4-RKD and referring to several sets of previously established selleckchem diagnostic criteria for AIP [12, 13, 41, 42], we prepared diagnostic criteria for IgG4-RKD. In the diagnostic procedure of AIP, pancreatic imaging, serology, and histology have been regarded as important factors by Japanese researchers Amino acid [12]. In addition, Chari et al. [13] added other organ involvement and response to steroid therapy as useful findings in making the diagnosis of AIP. Application of the approach of AIP to IgG4-RKD based on renal imaging, serology, and

histology appears reasonable and are similarly useful. In addition, if renal pathology is not available, histological findings of an extra-renal sample with abundant infiltrating IgG4-positive plasma cells (> 10/HPF and/or IgG4/IgG > 40%) with characteristic radiographic findings of kidneys seem to be sufficient to make a definite diagnosis. Responsiveness to corticosteroid therapy was not very useful in the diagnosis of IgG4-RKD because idiopathic TIN is in general responsive to it. On the basis of this analysis of 41 patients with IgG4-RKD, we proposed a diagnostic algorithm (Fig. 4) and a set of diagnostic criteria (Table 3). Using this algorithm, 92.7% of patients were diagnosed with definite IgG4-RKD, and using these diagnostic criteria, 95.1% of them were diagnosed with definite IgG4-RKD.

In addition, gingipains can mediate bacterial interactions with host components [6]. Recent findings indicate that gingipains are also involved in biofilm development. Polyphenolic inhibitors of gingipains can prevent not only homotypic (monospecies) biofilm formation by P. gingivalis [7], but also synergistic biofilm formation with Fusobacterium nucleatum [8]. In addition, an RgpB-deficient mutant of P. gingivalis lost the

ability to form synergistic biofilms with Treponema denticola [9]. A low molecular weight tyrosine phosphatase, Ltp1, was found to be involved in biofilm formation via suppression of exopolysaccharide production and luxS expression, as well as dephosphorylation of gingipains [10]. Thus, gingipains and gingipain regulation may be related to exopolysaccharide accumulation. However, the exact role of gingipains in biofilm development remains to be elucidated. Two distinct fimbria types, long and short fimbriae, are present on the surface of P. gingivalis cells Fedratinib concentration [11]. Long fimbriae impact the host immune response by inducing human peripheral Selleck EPZ015938 macrophages and neutrophils to overproduce several proinflammatory cytokines such as interleukin-1 (IL-l), IL-6, and tumor necrosis factor alpha, through coordinated interactions with pattern-recognition receptors [12]. Long fimbriae were also reported to induce cross-talk between CXC chemokine receptor 4 and Toll-like receptor 2 in human monocytes and thus undermine host defense [13]. Furthermore,

long fimbriae are prominent adhesins that mediate colonization in periodontal tissues and invasion of host cells as well as dysregulation of host cell cycle, which assists P. gingivalis in its persistence in Vorinostat in vivo Resminostat periodontal tissues [14, 15]. While, the role of short

fimbriae in virulence is less well understood, they are necessary for the development of synergistic biofilms between P. gingivalis and Streptococcus gordonii via a specific interaction with the streptococcal SspB protein [16]. Recently, these two distinct types of fimbriae were reported to function cooperatively in the development of homotypic biofilms of P. gingivalis [17]. It was proposed that the long fimbriae were responsible for bacterial attachment to the substrate as well as initiation of colonization, whereas short fimbriae were involved in the formation of microcolonies and biofilm maturation. In that study, it was also shown that short fimbriae promoted bacterial autoaggregation, which was suppressed by the long fimbriae. In contrast, another study showed opposite results, as deletion of short fimbriae enhanced autoaggregation and negligible autoaggregation occurred in the long fimbria mutants tested [18]. Thus, the contextual roles of these fimbria types in biofilm development are unclear, and further study is necessary. In the present study, we examined the roles of long and short fimbriae as well as Arg-and Lys-gingipains in homotypic biofilm formation by P. gingivalis using a series of deletion mutants of strain ATCC33277.

Tumor necrosis factor-alpha-induced iron sequestration and oxidative stress in human find more endothelial cells. Arterioscler Thromb Vasc Biol. 2005;25:2495–501.PubMedCrossRef 41. Nicolas G, Bennoun M, Devaux I, Beaumont C, Grandchamp B, Kahn A, Vaulont S. Lack of hepcidin gene expression and severe tissue iron overload in upstream stimulatory factor 2 (USF2) knockout mice. Proc Natl Acad Sci USA. 2001;98:8780–5.PubMedCrossRef 42. Pigeon C, Ilyin G, Courselaud B, Leroyer P, Turlin B, Brissot P, Loreal O. A new mouse liver-specific gene, encoding a protein selleck screening library homologous to human antimicrobial peptide hepcidin, is overexpressed during iron overload. J Biol Chem.

2001;276:7811–9.PubMedCrossRef 43. Nemeth E, Tuttle MS, Powelson J, Vaughn MB, Donovan A, Ward DM, Ganz T, Kaplan J. Hepcidin regulates cellular iron efflux by binding to ferroportin and inducing its internalization. Science. 2004;306:2090–3.PubMedCrossRef 44. Brasse-Lagnel C, Karim Z, Letteron P, Bekri S, Bado A, Beaumont C. Intestinal DMT1 cotransporter is downregulated by hepcidin via proteasome-internalization and degradation. Gastroenterology. 2011;140:1261–71.PubMedCrossRef 45. Kuragano T, Shimonaka Y, Kida A, Furuta M, Nanami M, Otaki Y, Hasuike Y, Nonoguchi H, Nakanishi T. Determinants of hepcidin

in patients on maintenance hemodialysis: role of inflammation. Am J Nephrol. 2010;31:534–40.PubMedCrossRef 46. Weiss G, Theurl I, Eder AZD1390 solubility dmso S, Koppelstaetter C, Kurz K, Sonnweber T, Kobold U, Mayer G. Serum hepcidin concentration selleck kinase inhibitor in chronic haemodialysis patients: associations and effects of dialysis, iron and erythropoietin therapy. Eur J Clin Invest. 2009;39:883–90.PubMedCrossRef 47. Ford BA, Eby CS, Scott MG, Coyne DW. Intra-individual variability in serum hepcidin precludes its use as a marker of iron status in hemodialysis patients. Kidney Int. 2010;78:769–73.PubMedCrossRef 48. Nemeth E, Rivera S, Gabayan V, Keller C, Taudorf S, Pedersen BK, Ganz T. IL-6 mediates hypoferremia of inflammation by inducing the synthesis of the iron regulatory hormone hepcidin. J Clin Invest. 2004;113:1271–6.PubMed

49. Nakanishi T, Kuragano T, Nanami M, Otaki Y, Nonoguchi H, Hasuike Y. Importance of ferritin for optimizing anemia therapy in chronic kidney disease. Am J Nephrol. 2010;32:439–46.PubMedCrossRef 50. Theurl I, Aigner E, Theurl M, Nairz M, Seifert M, Schroll A, Sonnweber T, Eberwein L, Witcher DR, Murphy AT, Wroblewski VJ, Wurz E, Datz C, Weiss G. Regulation of iron homeostasis in anemia of chronic disease and iron deficiency anemia: diagnostic and therapeutic implications. Blood. 2009;113:5277–86.PubMedCrossRef 51. Theurl I, Finkenstedt A, Schroll A, Nairz M, Sonnweber T, Bellmann-Weiler R, Theurl M, Seifert M, Wroblewski VJ, Murphy AT, Witcher D, Zoller H, Weiss G. Growth differentiation factor 15 in anaemia of chronic disease, iron deficiency anaemia and mixed type anaemia. Br J Haematol. 2010;148:449–55.PubMedCrossRef 52.

SAD, PB and WK performed cluster analysis and checked the dataset for errors. KN, PB, SAD and HN designed the Brucella specific Micronaut™ microtiter plate. SAD wrote the report. KN, HN and WK helped to draft the manuscript. All authors read, commented and approved the final article.”
“Background Mycobacterium avium subsp. paratuberculosis (MAP), the causative agent of Johne’s disease (JD) of ruminants, often find more requires eight to sixteen weeks to see Eltanexor chemical structure colonies in culture – a major hurdle in the diagnosis and therefore in implementation of optimal control measures. Unlike other mycobacteria, which mobilize iron via mycobactins, MAP is unable to produce

detectable mycobactin in vitro or in vivo [1–3]. Although the reasons for the in vitro mycobactin dependency of MAP are currently unknown, we PD0332991 price have recently shown that the mycobactin (mbt) operon promoter is active and that the mycobactin genes are transcribed by MAP inside macrophages [4] and in tissues of naturally infected animals (accepted for publication in BMC Genomics). Pathogenic mycobacteria encounter a wide variety of stressors inside the host cells and their ability to overcome iron deprivation and iron toxicity represents a major virulence determinant [5]. Transcript and protein profiling of MTB and other pathogens in response

to in vitro iron stress is well documented [6–9]. While MAP transcriptome or proteome profiles in response to heat shock, pH, oxidative stress, hypoxia, and nutrient starvation have been demonstrated [10–12], stress responses to iron supplementation or starvation are lacking. Iron dependent regulator (IdeR) has been very well studied as a global regulator involved in maintaining iron homeostasis in Mycobacterium tuberculosis (MTB) [13]. Recently we have demonstrated that IdeR of MAP in the presence of iron recognizes a consensus sequence on the promoter called “”iron box”" and regulates expression of genes involved in iron acquisition (mbt) and storage (bfrA). Oxymatrine More interestingly, we demonstrated

that polymorphisms in the promoter of iron storage gene (bfrA) in S MAP strains relative to C MAP strains results in a differential gene regulation [4]. IdeR dependent repression of bfrA in the presence of iron suggests variations in iron storage mechanisms and/or iron requirements in cattle and sheep MAP strains. Comparative genomic hybridizations, short sequence repeat analysis and single nucleotide polymorphisms of MAP isolates obtained from diverse host species have established and indexed genomic differences between C and S strains of MAP [14–19]. Phylogenetic analysis of sequences has identified C and S strains as separate pathogenic clones that share a common ancestor [20–23]. Furthermore, cellular infection studies show distinctive phenotypes between the two MAP strain types [24, 25].

Figure 6 PL, EL, and EPL spectra of THH-VCSOA at T  = 300 K. Figure 7 Gain versus incident power using various applied voltages at T  = 300 K. Conclusions The operation of bidirectional THH-VCSOA-based Ga0.35In0.65 N0.02As0.08 at a wavelength of 1,280 nm has been demonstrated. Maximum optical gain of about 5 dB is observed at V app = 80 V and at T = 300 K. Therefore, we conclude that the THH-VCSOA device is a bidirectional field-effect light-emitting and light-absorbing heterojunction and can work as an optical amplifier and wavelength converter in the 1.3-μm wavelength regime. The performance of the device can be improved by selleck inhibitor reducing the dimensions of the device, click here so that high electrical

fields can be reached by the application of small voltages. Acknowledgements FAI Chaqmaqchee is grateful to the Ministry of Higher Education and Scientific Research of IRAQ for their financial support during her study at the University of Essex. We are grateful

to the Institute for Systems Based on Optoelectronics and Microtechnology in Madrid for their assistance with the device fabrication. The authors are also grateful to Professor Mark Hopkinson and Dr. Maxim Hughes for growing the structures. Finally, we would like to thank the COST Action MP0805 for the collaborative research. References 1. Bjorlin ES, Geske J, Bowers JE: Optically preamplified receiver at 10 Gbit/s using vertical-cavity SOA. Elect Lett 2001, 37:1474–1475.CrossRef 2. Suzuki N, Ohashi M, Nakamura M: A proposed vertical-cavity optical repeater for optical inter-board LCL161 purchase connections. IEEE Photo Technol Lett 1997, 9:1149–1151.CrossRef 3. Bouche N, Corbett B, Kuszelewicz R, Raj R: Dipeptidyl peptidase Vertical-cavity amplifying photonic switch at 1.5 μm. Photon Technol Lett 1996, 8:1035–1037.CrossRef

4. Björlin ES, Dahl A, Piprek J, Abraham P, Chiu Y-J, Bowers JE: Vertical-cavity amplifying modulator at 1.3 μm. Photo Technol Lett 2001, 13:1271–1273.CrossRef 5. Alexandropoulos D, Adams MJ: GaInNAs-based vertical cavity semiconductor optical amplifiers. J Phys: Condens Matter 2004, 16:S3345-S3354. 6. Piprek J, Björlin S, Bowers JE: Design and analysis of vertical-cavity semiconductor optical amplifiers. IEEE J Quantum Electron 2001, 37:127–134.CrossRef 7. Wah JY, Balkan N: Low field operation of hot electron light emitting devices: quasi-flat-band model. IEE Proc Optoelectron 2004, 151:482–485.CrossRef 8. O’Brien A, Balkan N: Ultra bright surface emission from a distributed Bragg reflector hot electron light emitter. Appl Phys Lett 1997, 70:366.CrossRef 9. Sceats R, Balkan N: Hot electron light emission at 1.3 μm from a GaInAsP/InP structure with distributed Bragg reflectors. Phys Stat Sol 2003, 198:495–502.CrossRef 10. Chaqmaqchee FAI, Mazzucato S, Oduncuoglu M, Balkan N, Sun Y, Gunes M, Hugues M, Hopkinson M: GaInNAs-based Hellish vertical cavity semiconductor optical amplifier for 1.3 μm operation. Nanoscale Res Lett 2011, 6:1–7.CrossRef 11.

Inter-chromosomal HR leading to LOH is thought to occur by break-induced replication (BIR) [54]. BIR has been proposed to utilize a single-ended DSB on one buy Epacadostat homolog to generate a replication fork-like intermediate with the unbroken homolog that may potentially proceed until reaching the end of the donor chromosome (Additional file 1: Figure S4A) [22]. In contrast, RAD59-dependent heteroallelic recombination is thought to utilize a double-ended DSB where both ends are rescued, either through concerted interactions with the unbroken homolog, or through the first end interacting with the homolog followed by the second end

annealing with the first after Citarinostat price gaining sequences copied from the unbroken homolog (Additional; file 1: Figure

S4B). The stimulation Emricasan cost of both mechanisms of HR between homologs suggests that loss of RAD27 leads to the accumulation of both single- and double-ended DSBs. DSBs may arise when the failure to remove flaps on the 5′ ends of Okazaki fragments leads to accumulation of nicks on newly replicated lagging strands (Figure  5). Persistence of these nicks into the subsequent cell cycle will leave discontinuities on the template for leading strand synthesis that will stall replication and form single-ended DSBs. If a second replication fork from an adjacent replicon collides with the first stalled fork, a double-ended DSB can PRKD3 arise. A genome-wide increase in replication-induced DSB formation, like that induced by many chemotherapeutic agents, would therefore require a robust response by the HR apparatus

to prevent chromosome loss, potentially explaining the critical role of HR in determining sensitivity to these drugs in humans [55, 56]. Figure 5 Models for initiation of RAD51- and RAD59- dependent and –independent HR by defective lagging strand synthesis. 1.) Accumulation of daughter strand nicks in the absence of Rad27 nuclease causes replication fork stalling during the next S phase when the lagging strand becomes the template for leading strand synthesis and the replication fork encounters the discontinuity. 2.) The stalled fork is converted into an intact chromatid and a single-ended DSB. The single-ended DSB becomes a substrate for RAD51- and RAD59-independent HR mechanisms, such as interstitial and terminal LOH (Additional file 1: Figure S3). 3.) The replication fork from an upstream replicon converges with the previously stalled fork. 4.) Converged forks are converted into an intact chromatid and a double-ended DSB. The double-ended DSB becomes a substrate for RAD51- and RAD59-dependent HR mechanisms, such as ectopic gene conversion and heteroallelic recombination (Figures 3A and 4A). Conclusions RAD59 encodes one of several homologous recombination (HR) factors required for viability of budding yeast cells lacking the DNA replication factor, Rad27.

J Nanopart Res 2013, 15:1–29.CrossRef 48. Khlebtsov BN, Panfilova EV, Terentyuk GS, Maksimova IL, Ivanov AV, Khlebtsov NG: Plasmonic nanopowders for photothermal therapy

of tumors. Langmuir 2012, 28:8994–9002.CrossRef 49. Khlebtsov BN, find more Khanadeev VA, Panfilova EV, Pylaev TE, Bibikova OA, Staroverov SA, Bogatyrev VA, Dykman LA, Khlebtsov NG: New types of Akt inhibitor nanomaterials: powders of gold nanospheres, nanorods, nanostars, and gold–silver nanocages. Nanotechnologies in Russia 2013, 8:209–219.CrossRef 50. Tsvetkov MY, Khlebtsov BN, Panfilova EV, Bafratashvili VN, Khlebtsov NG: Gold nanorods as a promising technological platform for SERS-analytics. Russian Chem J 2012, 56:83–90. (in Russian) 51. Stockman MI: Nanoplasmonics: past, present, and glimpse into future. Opt Express 2011, 19:22029–22106.CrossRef 52. Nikoobakht B, El-Sayed MA: Preparation and growth mechanism of gold selleck screening library nanorods (NRs) using seed-mediated growth method. Chem Mater 2003, 15:1957–1962.CrossRef 53. Khlebtsov B, Khanadeev V, Khlebtsov N: A new T-matrix solvable model for nanorods: TEM-based ensemble simulations supported by experiments. J Phys Chem C 2011, 115:6317–6323.CrossRef 54. Stöber W, Fink A, Bohn E: Controlled growth of monodisperse silica spheres in the micron size range. J Colloid Interface Sci 1968, 26:62–69.CrossRef 55. Tsvetkov MY,

Bagratashvili VN, Panchenko VY, Rybaltovskii AO, Samoylovich MI, Timofeev MA: Plasmon resonances of silver nanoparticles in silica based mesostructured films. Nanotechnologies in Russia 2011, 6:619–624.CrossRef 56. GNAT2 Khlebtsov BN, Khanadeev VA, Khlebtsov NG: Observation of extra-high depolarized light scattering spectra from gold nanorods. J Phys Chem C 2008, 112:12760–12768.CrossRef 57. Ratto F, Matteini P, Rossi F, Pini R: Size and shape control in the overgrowth of gold nanorods. J Nanopart Res 2010, 12:2029–2036.CrossRef 58. Khlebtsov BN, Khanadeev VA, Khlebtsov NG: Determination

of the size, concentration, and refractive index of silica nanoparticles from turbidity spectra. Langmuir 2008, 277:107–110. 59. Busch K, John S: Photonic band gap formation in certain self-organizing systems. Phys Rev E 1998, 58:3896–3908.CrossRef 60. Lopez C: Materials aspects of photonic crystals. Adv Mater 2003, 15:1679–1704.CrossRef 61. Bertone JF, Jiang P, Hwang KS, Mittleman DM, Colvin VL: Thickness dependence of the optical properties of ordered silica-air and air-polymer photonic crystals. Phys Rev Lett 1999, 83:300–303.CrossRef 62. Jain PK, El-Sayed MA: Plasmonic coupling in noble metal nanostructures. Chem Phys Lett 2010, 487:153–164.CrossRef 63. Zong S, Wang Z, Yang J, Wang C, Xu S, Cui Y: A SERS and fluorescence dual mode cancer cell targeting probe based on silica coated [email protected] core–shell nanorods. Talanta 2012, 97:368–375.CrossRef 64.

Infect Immun 2005, 73:6860–6867.CrossRefPubMed 16. McNally A, La Ragione RM, Best A, Manning G, Newell DG: An aflagellate mutant Selleck CUDC-907 Yersinia enterocolitica biotype 1A strain displays altered invasion of epithelial cells, persistence GDC-0068 order in macrophages, and cytokine secretion profiles in vitro. Microbiology 2007, 153:1339–1349.CrossRefPubMed 17. Jones BD, Lockatell CV, Johnson DE, Warren JW, Mobley HL: Construction of a urease-negative mutant of Proteus mirabilis : analysis of virulence in a mouse model of ascending urinary tract infection. Infect Immun 1990, 58:1120–1123.PubMed

18. Marshall BJ, Barrett LJ, Prakash C, McCallum RW, Guerrant RL: Urea protects Helicobacter ( Campylobacter ) pylori from the bactericidal effect of acid. Gastroenterology 1990, 99:697–702.PubMed 19. Sangari FJ, Seoane A, Rodríguez MC, Agüero J, García Lobo JM: Characterization of the urease operon of Brucella abortus and assessment of its role in virulence of the bacterium. Infect Immun 2007, 75:774–780.CrossRefPubMed 20. de Koning-Ward TF, Robins-Browne RM: Contribution of urease to acid tolerance

in Yersinia enterocolitica. Infect Immun 1995, 63:3790–3795.PubMed 21. Gripenberg-Lerche C, Zhang L, Ahtonen P, Toivanen P, Skurnik M: Construction of urease-negative mutants of Yersinia enterocolitica serotypes O:3 and O:8: role of urease in virulence and arthritogeniCity. Infect Immun 2000, 68:942–947.CrossRefPubMed 22. Sachdeva P, Virdi JS: Repetitive elements sequence (REP/ERIC)-PCR

based genotyping of clinical and environmental strains of Yersinia enterocolitica biotype 1A reveal existence of limited number Evofosfamide order of clonal groups. FEMS Microbiol Lett 2004, 240:193–201.CrossRefPubMed 23. de Koning-Ward TF, Ward AC, Robins-Browne RM: Characterisation of the urease-encoding gene complex of Yersinia enterocolitica. Gene 1994, 145:25–32.CrossRefPubMed 24. Skurnik M, Batsford S, Mertz A, Schiltz E, Toivanen P: The putative arthritogenic cationic 19-kilodalton antigen of Yersinia enterocolitica is a urease β-subunit. Infect Immun 1993, 61:2498–2504.PubMed 25. Campanella JJ, Bitincka L, Smalley J: MatGAT: an application that generates similarity/identity matrices using protein or DNA sequences. BMC Bioinformatics 2003, 4:29.CrossRefPubMed 26. GeneMark[http://​exon.​biology.​gatech.​edu/​genemark_​prok_​gms_​plus.​cgi] selleck kinase inhibitor 27. GeneMark.hmm[http://​exon.​gatech.​edu/​gmhmm2_​prok.​cgi] 28. FGENESB[http://​www.​softberry.​com/​berry.​phtml] 29. NCBI ORF finder[http://​www.​ncbi.​nlm.​nih.​gov/​gorf/​gorf.​html] 30. Gulati P, Varshney RK, Virdi JS: Multilocus variable number tandem repeat analysis as a tool to discern genetic relationships among strains of Yersinia enterocolitica biovar 1A. J Appl Microbiol 2009, 107:875–884.CrossRefPubMed 31. Bradford M: A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 1976, 72:248–254.