The theoretical rationale was based on studies from the early 199

The theoretical rationale was based on STI571 in vitro studies from the early 1990s that reported that calcium pyruvate supplementation (16 – 25 g/d with or without dihydroxyacetone phosphate [DHAP]) promoted fat loss in overweight/obese patients following a medically supervised weight loss program [351–353]. Although the mechanism for these findings was unclear, the researchers speculated that it might be

related to appetite suppression and/or altered carbohydrate and fat metabolism. Since calcium pyruvate is very expensive, selleckchem several studies have attempted to determine whether ingesting smaller amounts of calcium pyruvate (6-10 g/d) affect body composition in untrained and trained populations. Results of these studies are mixed. Earlier studies have shown both a positive effect on calcium pyruvate supplementation in improving body composition [354], however, Stone and colleagues [355] reported that pyruvate supplementation did not affect hydrostatically determined body composition during 5-weeks of in-season college football training. More recently, calcium pyruvate Ro 61-8048 mw supplementation was also shown to not have a significant effect on body composition or exercise performance. Additionally, it has been reported that supplementation may negatively affect some blood lipid levels

[356]. These findings indicate that although there is some supportive data indicating that calcium pyruvate supplementation may enhance fat loss when taken Phosphoribosylglycinamide formyltransferase at high doses (6-16 g/d), there is no evidence that ingesting the doses typically found in pyruvate supplements (0.5 – 2 g/d) has any affect on body composition. In addition, the overall quantity of research examining calcium pyruvate is minimal at best thus it is not warranted to include calcium pyruvate as a weight loss supplement. Chitosan Chitosan has been marketed as a weight loss supplement for several years as is known as a “”fat trapper”". It is purported to inhibit fat absorption and lower cholesterol. This notion is supported animal studies indicated by decreased fat absorption, increased fat content, and/or lower cholesterol following chitosan feedings [357–360].

However, the effects in humans appear to be less impressive. For example, although there is some data suggesting that chitosan supplementation may lower blood lipids in humans,[361] other studies report no effects on fat content [362, 363]or body composition alterations [364–366] when administered to people following their normal diet. More recent work has shown that the effect of chitosan on fat absorption is negligible and is the equivalent of approximately 9.9 kcal/day following supplementation [362]. Other work has concluded that the insignificant amounts of fat that are trapped from supplementation would take about 7 months for a male to lose a pound of weight, and that the effect was completely ineffective in women [364].

Standard deviation bars denote averages from three independent ex

Standard Repotrectinib nmr deviation bars denote averages from three independent experiments. *: significant difference, p <0.05; **: significant difference, p <0.01. Figure 5 Exogenous addition of 8-Br-cAMP to the AC-RNAi mutant results in increased growth rates. The morphology of the wild type, knockdown control and AC-RNAi mutant colonies grown in the presence of 8-Br-cAMP (5 mM) were inoculated on PDA medium. These cultures were grown for 5 d prior to documentation. Scale bar: 0.5 cm. MaAC is required for in vivo virulence and growth Differences in virulence and invasive

growth inside insects were also compared between the wild type and RNAi mutant. Figure 6A shows SB525334 concentration that, 5 days post-inoculation on the pronotum, locusts infected www.selleckchem.com/products/Cyclosporin-A(Cyclosporine-A).html by the wild type fungus began to die, while those infected by the RNAi mutant died 1 day later. Figure 6B shows that when the insects were inoculated by the injection of conidia into abdominal segments, the locusts began to die 4 days after injection of the wild type, and again the insects treated with the conidia of RNAi mutant died 1 day later. Accordingly, the lethal time value for 50% mortality (LT50) by topical inoculation and

injection of the RNAi mutant was significantly higher than that of the wild type (p <0.05) (Figure 6C), which indicated that MaAC is required for M. acridum virulence. Figure 6 The virulence and fungal growth in the haemolymph of locust  in vivo  and  in vitro  . A. Topical application with 5 μL suspensions of 1 × 107 conidia/mL of wild type and RNAi mutant (control insects were inoculated with 5 μL cottonseed oil). B. Survival of the locusts by injection with 5 μL suspensions of 2 × 106 conidia/mL (control insects were injected with 5 μL sterile water). C. Lethal time for 50% mortality (LT50) values of Locusta migratoria treated with the wild type or AC-RNAi

mutant. Error bars denote standard deviations obtained from five trials. D. DNA concentration of AC-RNAi and wild type in the hemolymph of locusts 48 h after injection. E. Photomicroscopy of the development of conidiation patterns of M. acridum in the hemolymph of locusts. After 4 d of infection on the pronotum, the conidiation of the RNAi mutant strain grew slower than the wild type strain. The conidiation of the RNAi mutant strain grew also slower than the wild type Rolziracetam strain 3 d after injection into abdominal segments. F. Photomicroscopy of the development of conidiation patterns of M. acridum in the hemolymph of locusts in vitro. After they were cultured for 24 h, the conidiation of the RNAi mutant strain grew slower than the wild type strain. Scale bar: 20 μm. Error bars are standard deviations of five trials. *: significant difference, p <0.05, **: significant difference, p <0.01. To confirm the effect of MaAC on virulence, fungal growth in vivo was observed by photomicroscopy and quantified by real-time PCR. The M.

The remaining phylotypes grouped together with other uncultivated

The remaining phylotypes grouped together with other uncultivated

methanogens belonging to a recently proposed seventh order of methanogenic archaea, the Methanoplasmatales[24]. Figure 3 Pie chart representation of methanogen 16S rRNA gene clone distributions in feces of white rhinoceroses. Methanocorpusculum-like sequences represented https://www.selleckchem.com/products/fosbretabulin-disodium-combretastatin-a-4-phosphate-disodium-ca4p-disodium.html the majority in the library (60%), followed by Methanobrevibacter-like (27%), Methanomassiliicoccus-related (9%) and Methanosphaera-like (4%). Discussion To the best of our knowledge, the current study is the first to report methanogens closely related to Methanocorpusculum labreanum[25] as the predominant phylotype in the gastrointestinal tract of animals. This is in contrast to many other studies, where Methanobrevibacter species were the dominant methanogen phylotypes in other herbivores worldwide [26–30]. In the present study, approximately 60% of the 153 16S rRNA gene sequences obtained from the feces of white rhinoceroses was related to the genus Methanocorpusculum. However, it is important to note

that the use of a pooled sample makes it impossible to know if these methanogens were prevalent in all Temsirolimus in vivo seven animals. In contrast, the proportion of the sequences assigned to the genus Methanobrevibacter was only 27%. Studies on ruminants [10] and on monogastric animals, such as pigs and gnotobiotic mice [14, 31],

have indicated that Methanobrevibacter smithii affects the efficiency of digestion of dietary polysaccharides, whereas most strains of Methanocorpusculum www.selleck.co.jp/products/PD-0332991.html labreanum have been isolated from sediments, anaerobic digesters, waste water [32, 33], and the hindgut of termites [34, 35]. Methanocorpusculum labreanum also requires acetate as a carbon source and has additional see more complex nutritional requirements [36]. Termites, horses and very large herbivores such as rhinoceroses and elephants are typical hindgut fermenters [37]. The common distribution of Methanocorpusculum labreanum in the hindgut of termites and rhinoceroses may likely be due to the digestive physiology of the hindgut and may play an unusual function for digestion of dietary fibers. Facey et al. [38] found that Methanosphaera stadtmanae, a methanol utilizer, was the predominant methanogen in the gastrointestinal tract of orangutans. The researchers suggested that the high prevalence of Methanosphaera stadtmanae may likely due to the increased availability of methanol from the highly frugivorous diet of the orangutans. Methanosphaera stadtmanae was also found in the current study, but was represented in only 4% of the total sequences.

0, 150 mM NaCl, 0 05% Tween 20), 4 times for

0, 150 mM NaCl, 0.05% Tween 20), 4 times for Screening Library purchase 10 minutes, 10 minutes, 15 minutes and 15 minutes and then reacted with anti-rabbit IgG (Cell Signaling technology®, #7074) -horseradish peroxidase-linked species-specific whole antibody dilutes to 1:2,000 for 1 hour. After the reaction with the secondary antibody, it was washed 4 times for 10 minutes, 10 minutes, 15 minutes and 15 minutes. Proteins on the membrane were detected using an enhanced chemiluminescence solution kit (Amersham, UK). The membranes were stripped and reblotted with anti-actin antibody (catalog number sigma A5441).

Western blotting analysis with mouse monoclonal antibody specific for phospho-Src (Calbiochem-Novabiochem, San Diego, CA) and mouse monoclonal antibody specific for phospho-Yes (WAKO, Osaka, Japan), were carried out on the 2 MM, 2 SCC, 2 BCC and 2 normal skin as described. Immunohistochemical staining For immunohistochemical studies, the stored formalin-fixed, paraffin-embedded samples that included, 16 MM, 16 SCC, and 16 BCC were used. Parraffin

sections (4 μm) were deparaffinized in xylene, rehydrated learn more in 10 mM citrate buffer (pH 6.0), and then heated in a microwave oven for 15 minutes to restore antigens. To suppress endogenous peroxidase within the tissues, the samples were treated with 3% peroxide for 5 minutes, then with blocking solution for 30 minutes. Slides were incubated with primary Src (36D10) rabbit mAb and Yes antibody in a humid chamber for 60 minutes. Tissue staining was visualized with 3,3′-Diaminobenzidine (DAB)

(ScyTek, USA) substrate chromogen solution. Assessment Adenosine of western blot analysis The amount of expression in western blotting was Epigenetics Compound Library supplier measured with TINA software (Version 2.10e). Measured amount of expression of malignant skin tumors was compared to that of normal skin. Statistical analysis The data from the TINA score were analyzed using the nonparametric Mann-Whitney test. A p < 0.05 was considered statistically significant. Results Western blot analysis Western blot analysis was performed to determine the expression of c-Src and c-Yes in 18 malignant skin tumors and 6 normal skin tissues. c-Src was expressed in all malignant skin tumors but not expressed in normal skin tissues, while c-Yes was expressed in MM and SCC and not in BCC and normal skin (Fig. 1) (data not shown for M-5, M-6, S-5, S-6, B-5, B-6, N-5, N-6). The expression amount score in western blotting was measured by TINA software (Version 2.10e), and the average TINA score of c-Src was 0.006 in normal skin, 1.143 in MM, 1.027 in SCC, and 0.590 in BCC. The average TINA score of c-Yes was 0.011 in normal skin, 0.374 in MM, 1.054 in SCC, and 0.012 in BCC. There were significant differences in the TINA scores of c-Src between malignant skin tumors and normal skin (p = 0.002). Of the tumor tissues, significant differences in c-Src score among the tumors (p = 0.002) were noted.

Methods

In this work, the fabrication of the self-assembl

Methods

In this work, the fabrication of the self-assembled Au droplets was investigated on various GaAs type-B (n11) substrates, where n is 9, 8, 7, 5, 4, and 2 in a pulsed laser deposition (PLD) system. The GaAs wafers utilized in this work were semi-insulating or undoped with an off-axis of ±0.1° from VX-809 cost the Wafer Technology Ltd. (Milton Keynes, UK). To start with, a batch of samples including the various type-B GaAs substrates was indium soldered on an Inconel sample holder side by side to maintain the uniformity among the samples and then was treated with a 30-min degas process at 350°C under 1 × 10-4 Torr to remove the contaminants. Subsequently, Au deposition was equally performed on the various type-B GaAs substrates

at a growth rate of 0.05 nm/s with an ionization current of 3 mA under 1 × 10-1 Torr in XL184 in vivo a plasma ion-coater chamber. Au deposition of 2, 3, 4, 6, 9, and 12 nm was systematically performed, and regardless of the deposition amount, the surface showed a quite smooth morphology as shown in Figure 1b,b-1. As an example, Table 1 shows the root-mean-square (RMS) roughness (R q) of the various GaAs surfaces after the 3-nm Au deposition as compared to the Figure 1b. Next, annealing process was implemented by a programmed recipe, and the substrate temperature (T sub) was gradually increased to 550°C from the ambient temperature (approximately 25°C) at a fixed rate of 1.83°C/s under a chamber pressure of 1 × 10-4 Torr. After reaching the target T sub (550°C) [35], the samples were Sulfite dehydrogenase dwelt for 150 s to ensure the maturation of the droplets. Immediately after the dwell process, the samples were quenched down to the ambient temperature to minimize the ripening effect [36, 37]. An atomic force microscope (AFM) under atmospheric pressure was employed to characterize the surface morphology

with non-contact tapping mode. The tips used in this work were NSC16/AIBS (μmasch, Lady’s Island, SC, USA) with a curvature radius less than 10 nm. The RG7420 concentration spring constant was approximately 40 N/m, and the resonation frequency was approximately 170 kHz. A scanning electron microscope (SEM) under vacuum was utilized for the characterizations of the resulting samples, and energy-dispersive X-ray spectrometry (EDS) was utilized (Thermo Fisher Noran System 7, Thermo Fisher Scientific, Waltham, MA, USA) for the elemental analysis. Table 1 Root-mean-square (RMS) roughness ( R q ) of various GaAs surfaces after 3-nm Au deposition Surface (211)B (411)B (511)B (711)B (811)B (911)B R q [nm] 0.361 0.264 0.232 0.351 0.347 0.269 Results and discussion Figure 2 shows the self-assembled Au droplets on GaAs (211)B by the systematic variation of the Au DA from 2 to 12 nm with subsequent annealing at 550°C. Figure labels indicate the related DAs. AFM top views (3 × 3 μm2) of the corresponding samples are shown in Figure 2a,b,c,d,e,f along with enlarged 1 × 1 μm2 images below.

Appl Environ Microbiol 2003,69(9):5648–5655 PubMedCrossRef 64 Ba

Appl Environ Microbiol 2003,69(9):5648–5655.PubMedCrossRef 64. Bassler BL, Wright M, Silverman MR: Sequence and function of LuxO, a negative regulator of luminescence in LCZ696 research buy Vibrio harveyi. Mol Microbiol 1994,12(3):403–412.PubMedCrossRef 65. Taga ME, Miller ST, Bassler BL: Lsr-mediated transport and

processing of AI-2 in Salmonella typhimurium. Mol Microbiol 2003,50(4):1411–1427.PubMedCrossRef 66. Wang L, Hashimoto Y, Tsao CY, Valdes JJ, Bentley WE: Cyclic AMP (cAMP) and cAMP receptor protein influence both synthesis and uptake of extracellular autoinducer 2 in Escherichia coli. J Bacteriol 2005,187(6):2066–2076.PubMedCrossRef 67. Xavier KB, Bassler BL: Regulation of uptake and processing of the quorum-sensing autoinducer see more AI-2 in Escherichia coli. J Bacteriol 2005,187(1):238–248.PubMedCrossRef 68. O’Neill E, Pozzi C, Houston P, Smyth D, Humphreys H, Robinson DA, O’Gara JP: Association between methicillin susceptibility and biofilm regulation in Staphylococcus aureus isolates from device-related infections. J Clin Microbiol 2007,45(5):1379–1388.PubMedCrossRef 69. Kolenbrander PE, Andersen RN, Blehert DS, Egland PG, Foster JS, Palmer RJ Jr:

Communication among oral bacteria. Microbiol Mol selleck compound Biol Rev 2002,66(3):486–505. table of contentsPubMedCrossRef 70. Didilescu AC, Skaug N, Marica C, Didilescu C: Respiratory pathogens in dental plaque of hospitalized patients with chronic lung diseases. Clin Oral Investig 2005,9(3):141–147.PubMedCrossRef

71. Sumi Y, Miura H, Michiwaki Y, Nagaosa S, Nagaya M: Colonization of dental plaque by respiratory pathogens in dependent MG 132 elderly. Arch Gerontol Geriatr 2007,44(2):119–124.PubMedCrossRef 72. Govan JR: Infection control in cystic fibrosis: methicillin-resistant Staphylococcus aureus, Pseudomonas aeruginosa and the Burkholderia cepacia complex. J R Soc Med 2000,93(Suppl 38):40–45.PubMed 73. McKenney D, Pouliot KL, Wang Y, Murthy V, Ulrich M, Doring G, Lee JC, Goldmann DA, Pier GB: Broadly protective vaccine for Staphylococcus aureus based on an in vivo-expressed antigen. Science 1999,284(5419):1523–1527.PubMedCrossRef Competing interests The authors declare that they have no competing interests. Authors’ contribution DY carried out the experiments and performed the data analyses. BS, ZL, and TX contributed to the design and coordination of the experiments. DY wrote the manuscript. BS, TX and ZL participated in editing the manuscript. All authors have read and approved the manuscript.”
“Background V. scophthalmi is the most abundant species among the marine aerobic or facultatively anaerobic bacteria present in the intestinal tract of cultured turbot (Scophthalmus maximus) even though it is not the most abundant Vibrio species in the surrounding water [1, 2]. However, the possible benefits of turbot colonization by this bacterium are not well understood.

thuringiensis) was no more cohesive than that of randomly selecte

thuringiensis) was no more cohesive than that of randomly selected sets of isolates from the same genus, indicating that the current taxonomy of those species may need to be revisited. The differing pan-genomic properties of the various genera reported in this paper reflect the fact that different groups of bacteria have diverse evolutionary pressures and unequal rates of genomic evolution, and provide a starting point for a general, genome-based Smad activation understanding of such differences in a broad range of bacteria. We also note that the analyses described in this paper could be applied to any groups of interest, whether or not

the bacteria included in each group have a common taxonomic classification. The commonalities in each group could instead be related to phenotype; for example, ability to live in a particular environment, physiological properties, metabolic capabilities, or even disease pathogenesis. As such, the methods described in

this paper have broad applicability and should be useful for further pan-genomic comparisons in the future. There are a number of opportunities to build upon the work performed in this study. For instance, it would be interesting to further characterize proteins that are found in only Erismodegib a single isolate of a given genus (singlets). Our research revealed that the isolates of most genera contain, on average, hundreds of singlets. This phenomenon could be further described by answering questions like: how much variation is there in the number ADP ribosylation factor of singlets in isolates of the same genus? Do isolates inhabiting certain environments possess more singlets than other isolates? Do singlets tend to be biased toward any particular functional category

of protein? Another avenue for future work would be to enhance our study of the relationship between protein PND-1186 content similarity and 16S rRNA gene similarity. Despite the existence of usually-consistent lower bounds for 16S rRNA gene similarity for isolates of the same genus, in this study we were unable to determine corresponding bounds for protein content similarity. However, we considered only absolute measures of protein content (i.e. absolute numbers of shared proteins or average unique proteins), and it would also be worthwhile to devise biologically meaningful bounds using a relative measure that could take into account factors like the proteome sizes of the individual isolates, the number of individual isolates, and so on. Finally, perhaps the most obvious opportunity for future work is simply to repeat the analyses described in this paper when more genome sequences become available.

Following the warm-up period, subjects were directed to gradually

Following the warm-up period, subjects were directed to gradually increase the pace

of their pedalling over several check details seconds until they reached a maximal pace of unloaded sprinting. At this point, with a verbal cadence, external resistance was applied thereby initiating a 10-second period of sprint testing and data collection. Verbal encouragement was provided by the investigators to continue sprinting at maximal pace throughout the 10-second bout. Subjects were directed to continue pedalling at a slower controlled pace during the 1-minute active recovery periods. With five seconds remaining in the recovery period, subjects were again directed to gradually increase their pedalling to a sprinting pace for the second sprint. This procedure was continued for a total of five 10-second sprint PI3K Inhibitor Library screening bouts. Anaerobic power output of the sprints was determined using the SMI OptoSensor 2000 (Sports Medicine Industries, Inc., St. Cloud, Minn). Values of power output determined included peak power (PP) and mean power (MP) which in this case were the average values of power output during the first five seconds and total ten second period, respectively. The third power output measure

was a value of power decrement (DEC) in which the difference in power output between the first and second five second periods are expressed as a percentage of the first. Blood lactate levels were assessed using the Accutrend® Lactate analyzer (Sports Resource Group, Inc., Pleasantville, NY). The analyzer was calibrated using the standard control solutions prior to each testing session. Lactate values were determined at rest and post-exercise at minutes four and fourteen. Heart rate was measured using BCKDHB a Polar HR monitor system with values assessed at rest, during the final 5 seconds of each sprint as well as four and fourteen minutes following completion of the fifth sprint. Thigh girth was assessed using a Gulick tape with circumferential measurements taken 15 mm superior to the patella. Thigh girth was

measured at rest and four minutes following completion of the final sprint interval. Statistics Two-way repeated measures ANOVAs were used to determine whether there were statistically significant differences between conditions (GPLC, PL) and across time. In the cases where significant main effects of condition or condition × time interactions were detected, single degree of freedom contrasts were used to determine condition effects at each bout order without learn more adjustment of the acceptable level of significance. Net lactate accumulation relative to the power output of the sprints was calculated as the difference between the lactate measures at rest and those at 14 min divided by the average of the five MP values. Relative total power decrement was calculated for PP and MP as the relative difference between the first and last bout of each test condition.

Curr Biol 2013,23(12):R527-R530 PubMedCrossRef 10 Hann SS, Zheng

Curr Biol 2013,23(12):R527-R530.PubMedCrossRef 10. Hann SS, Zheng F, Zhao S: Targeting 3-phosphoinositide-dependent protein kinase 1 by N-acetyl-cysteine through activation of peroxisome proliferators activated receptor alpha in human lung cancer cells, the role of p53 and p65. J Exp Clin Canc Res 2013, 32:43.CrossRef 11. Brunet A, Bonni buy STA-9090 A, Zigmond MJ, Lin MZ, Juo P, Hu LS, Anderson MJ, Arden KC, Blenis

J, Greenberg ME: Akt promotes cell survival by phosphorylating and inhibiting a forkhead transcription factor. Cell 1999,96(6):857–868.PubMedCrossRef 12. Schmidt M, Fernandez de Mattos S, van der Horst A, Klompmaker R, Kops GJ, Lam EW, Burgering BM, Medema RH: Cell cycle inhibition by FoxO forkhead transcription factors involves downregulation of cyclin D. Mol Cell Biol 2002,22(22):7842–7852.PubMedCentralPubMedCrossRef 13. Yang JY, Zong CS, Xia W, Yamaguchi H, Ding Q, Xie X,

Lang JY, Lai CC, Chang CJ, Huang WC, Huang H, Kuo HP, Lee DF, Li LY, Lien HC, Cheng X, Chang KJ, Hsiao CD, Tsai FJ, Tsai CH, Sahin AA, Muller WJ, Mills GB, Yu D, Hortobagyi GN, Hung MC: ERK promotes tumorigenesis by inhibiting FOXO3a via MDM2-mediated degradation. Nat Cell Biol 2008,10(2):138–148.PubMedCentralPubMedCrossRef 14. Chen W, Yang Q, Roeder RG: Dynamic interactions and cooperative functions of PGC-1alpha and MED1 in TRalpha-mediated activation of the brown-fat-specific click here UCP-1 gene. Mol Cell 2009,35(6):755–768.PubMedCentralPubMedCrossRef Fenbendazole 15. Renault VM, Thekkat PU, Hoang KL, White JL, Brady CA, Kenzelmann Broz D, Venturelli OS, Johnson TM, Oskoui PR, Xuan Z, Santo EE, Zhang MQ, Vogel H, selleck screening library Attardi LD, Brunet A: The pro-longevity gene FoxO3 is a direct target of the p53 tumor suppressor. Oncogene 2011,30(29):3207–3221.PubMedCentralPubMedCrossRef 16. Macleod KF, Sherry N, Hannon G, Beach D, Tokino T, Kinzler K, Vogelstein B, Jacks T: p53-dependent and independent expression of p21 during cell growth, differentiation, and DNA damage. Genes Dev 1995,9(8):935–944.PubMedCrossRef 17. Hauck L, Harms C, Grothe D, An J, Gertz K, Kronenberg G, Dietz R, Endres M, von Harsdorf R: Critical role for FoxO3a-dependent regulation of

p21CIP1/WAF1 in response to statin signaling in cardiac myocytes. Circ Res 2007,100(1):50–60.PubMedCrossRef 18. Wen Q, Duan X, Liao R, Little P, Gao G, Jiang H, Lalit S, Quirion R, Zheng W: Characterization of intracellular translocation of forkhead transcription factor O (FoxO) members induced by NGF in PC12 cells. Neurosci Lett 2011,498(1):31–36.PubMedCrossRef 19. Yip NK, Ho WS: Berberine induces apoptosis via the mitochondrial pathway in liver cancer cells. Oncol Rep 2013,30(3):1107–1112.PubMed 20. Yan L, Yan K, Kun W, Xu L, Ma Q, Tang Y, Jiao W, Gu G, Fan Y, Xu Z: Berberine inhibits the migration and invasion of T24 bladder cancer cells via reducing the expression of heparanase. Tumour Biol 2013,34(1):215–221.PubMedCrossRef 21.

Ochman H,

Lawrence JG, Groisman EA: Lateral gene transfer

Ochman H,

Lawrence JG, Groisman EA: Lateral gene transfer and the nature of bacterial innovation. Nature 2000,405(6784):299–304.PubMedCrossRef 18. Thomas CM, Nielsen KM: Mechanisms of, and barriers to, horizontal gene transfer between bacteria. Nat Rev Microbiol 2005,3(9):711–721.PubMedCrossRef 19. Ohno S: Evolution by Gene Duplication. New York: Springer-Verlag; 1970. 20. Taylor JS, Raes J: Duplication and divergence: the evolution of new genes and old ideas. Annu Rev Genet 2004, Vorinostat mouse 38:615–643.PubMedCrossRef 21. Koonin EV, Galperin MY: Prokaryotic genomes: the emerging paradigm of genome-based microbiology. Curr Opin Genet Dev 1997,7(6):757–763.PubMedCrossRef 22. Rubin GM, Yandell MD, Wortman JR, Gabor Miklos GL, Nelson CR, Hariharan IK, Fortini ME, Li PW, Apweiler R, Fleischmann W, et al.: Comparative genomics of the eukaryotes. Science 2000,287(5461):2204–2215.PubMedCrossRef 23. Selleck Androgen Receptor Antagonist Kondrashov FA, Rogozin IB, Wolf YI, Koonin EV: Selection in the evolution of gene duplications. Genome Biol 2002,3(2):research0008.0001–0008.0009.CrossRef

24. Zhang J: Evolution by gene duplication: an update. Trends Ecol Evol 2003,18(6):292–298.CrossRef 25. Gevers D, Vandepoele K, Simillon C, Van de Peer Y: Gene duplication and biased functional retention of paralogs in bacterial genomes. Trends Microbiol 2004,12(4):148–154.PubMedCrossRef 26. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997,25(17):3389–3402.PubMedCrossRef 27. Lynch M: Genomics. Gene AG-881 price duplication and evolution. Science 2002,297(5583):945–947.PubMedCrossRef 28. Choudhary M, Fu YX, Mackenzie C, Kaplan S: DNA sequence duplication in Rhodobacter sphaeroides 2.4.1: evidence of an ancient partnership between chromosomes I and II. J Bacteriol 2004,186(7):2019–2027.PubMedCrossRef 29. Koonin EV: Orthologs, paralogs, and evolutionary genomics. Annu Rev Genet 2005, 39:309–338.PubMedCrossRef 30. Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, et al.: The COG database: an updated version includes eukaryotes.

BMC Bioinformatics BCKDHA 2003, 4:41.PubMedCrossRef 31. Tatusov RL, Koonin EV, Lipman DJ: A genomic perspective on protein families. Science 1997,278(5338):631–637.PubMedCrossRef 32. Drummond A, Ashton B, Cheung M, Heled J, Kearse M, Moir R, Stones-Havas S, Thierer T, Wilson A: Geneious v4.6. [http://​www.​geneious.​com/​] 4.6th edition. 2007. 33. Langkjaer RB, Cliften PF, Johnston M, Piskur J: Yeast genome duplication was followed by asynchronous differentiation of duplicated genes. Nature 2003,421(6925):848–852.PubMedCrossRef 34. Edgar RC: MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004,32(5):1792–1797.PubMedCrossRef 35. Guindon S, Gascuel O: A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood.