Strand-specific libraries for high throughput RNA sequencing (RNA-Seq) prepared without poly(A) selection.
AuthorsZhang Z, Theurkauf WE, Weng Z, Zamore PD,
JournalSilence
PubMed ID23273270
'High throughput DNA sequencing technology has enabled quantification of all the RNAs in a cell or tissue, a method widely known as RNA sequencing (RNA-Seq). However, non-coding RNAs such as rRNA are highly abundant and can consume >70% of sequencing reads. A common approach is to extract only polyadenylated mRNA; ... More
Participation of fad and mbt genes in synthesis of mycobactin in Mycobacterium smegmatis.
AuthorsLaMarca BB, Zhu W, Arceneaux JE, Byers BR, Lundrigan MD,
JournalJ Bacteriol
PubMed ID14702306
'Colonies of Mycobacterium smegmatis LR222 on iron-limiting (0.1 micro M Fe) minimal medium agar fluoresce under UV light due to the accumulation in the cells of the deferri form of the siderophore mycobactin. Two mutants with little or no fluorescence, designated LUN8 and LUN9, were isolated by screening colonies of ... More
Resistance to murine AIDS in offspring of mice infected with LP-BM5. Role of CD8 T cells.
AuthorsPavlovitch JH, Hulier E, Rizk-Rabin M, Marussig M, Mazier D, Joffret ML, Hoos S, Papiernik M
JournalJ Immunol
PubMed ID8648122
'The murine-acquired immunodeficiency syndrome (MAIDS) is caused by a mixture of murine leukemia viruses (LP-BM5 MuLV). The influence of perinatal contact with retroviruses or their Ags on the response to infection was tested by infecting with LP-BM5 (MuLV) the adult offspring of mice with MAIDS. These offspring were resistant to ... More
Inducible expression of a dominant negative DNA polymerase-gamma depletes mitochondrial DNA and produces a rho0 phenotype.
AuthorsJazayeri M, Andreyev A, Will Y, Ward M, Anderson CM, Clevenger W,
JournalJ Biol Chem
PubMed ID12645575
'We report the inducible, stable expression of a dominant negative form of mitochondria-specific DNA polymerase-gamma to eliminate mitochondrial DNA (mtDNA) from human cells in culture. HEK293 cells were transfected with a plasmid encoding inactive DNA polymerase-gamma harboring a D1135A substitution (POLGdn). The cells rapidly lost mtDNA (t1/2 = 2-3 days) ... More
Characterization and sequencing of prototypic human T-lymphotropic virus type 1 (HTLV-1) from and HTLV-1/2 seroindeterminate patient.
AuthorsWaziri A, Soldan SS, Graf MD, Nagle J, Jacobson S
JournalJ Virol
PubMed ID10666247
'Serological screening for human T-lymphotropic virus type 1 (HTLV-1) parallels the standard screening process for human immunodeficiency virus (HIV), in which samples found positive by enzyme-linked immunosorbent assay (ELISA) are confirmed with a modified Western blot procedure. There are a significant number of cases in which HTLV-1/2 ELISA-positive specimens demonstrate ... More
Comparison of DNA extraction methods for analysis of turkey cecal microbiota.
AuthorsScupham AJ, Jones JA, Wesley IV,
JournalJ Appl Microbiol
PubMed ID17241345
'AIM: As a prelude to long-term studies to characterize the microbiota of the turkey ceca, 14 DNA isolation protocols were evaluated for their ability to reproducibly characterize microbial diversity. METHODS AND RESULTS: Eight commercially available DNA extraction kits were assessed. DNA quantity and quality were assessed and competitive PCR was ... More
Mesenchymal stem cells modified with Akt prevent remodeling and restore performance of infarcted hearts.
AuthorsMangi AA, Noiseux N, Kong D, He H, Rezvani M, Ingwall JS, Dzau VJ
JournalNat Med
PubMed ID12910262
'Transplantation of adult bone marrow-derived mesenchymal stem cells has been proposed as a strategy for cardiac repair following myocardial damage. However, poor cell viability associated with transplantation has limited the reparative capacity of these cells in vivo. In this study, we genetically engineered rat mesenchymal stem cells using ex vivo ... More
An Escherichia coli mutant lacking the cold shock-induced palmitoleoyltransferase of lipid A biosynthesis: absence of unsaturated acyl chains and antibiotic hypersensitivity at 12 degrees C.
Authors Vorachek-Warren Mara K; Carty Sherry M; Lin Shanhua; Cotter Robert J; Raetz Christian R H;
JournalJ Biol Chem
PubMed ID11830594
'An acyltransferase induced by cold shock in Escherichia coli, designated LpxP, incorporates a palmitoleoyl moiety into nascent lipid A in place of the secondary laurate chain normally added by LpxL(HtrB) (Carty, S. M., Sreekumar, K. R., and Raetz, C. R. H. (1999) J. Biol. Chem. 274, 9677-9685). To determine whether ... More
A new approach to determining the rates of recruitment of circulating leukocytes into tissues: application to the measurement of leukocyte recruitment into atherosclerotic lesions.
AuthorsSteinberg D, Khoo JC, Glass CK, Palinski W, Almazan F
JournalProc Natl Acad Sci U S A
PubMed ID9108101
'Recruitment of circulating monocytes into the artery wall is an important feature of early atherogenesis. In vitro studies have identified a number of adhesion molecules and chemokines that may control this process but very little work has been done to evaluate their relative importance in vivo, in part because there ... More
Formation of coding joints in V(D)J recombination-inducible severe combined immune deficient pre-B cell lines.
AuthorsChang Y, Brown ML
JournalProc Natl Acad Sci U S A
PubMed ID9874794
'Characterization of the severe combined immune deficient (scid) defect in the recombination process has provided many insights into the underlying mechanisms of variable (diversity) joining recombination. By using recombination-inducible scid pre-B cell lines transformed with the temperature-sensitive Abelson-murine leukemia virus, we show that large quantities of recombination intermediates can be ... More
Requirement for the thymus in alphabeta T lymphocyte lineage commitment.
AuthorsCarlyle JR, Zuniga-Pflucker JC
JournalImmunity
PubMed ID9729039
We recently identified a fetal thymic developmental stage (NK1.1+/CD117(lo)) that characterizes committed T/NK progenitors. We now report the existence of phenotypically and functionally identical T/NK progenitors in mouse fetal blood and spleen but not in fetal liver. These precursors are indistinguishable from previously characterized fetal blood prothymocytes (CD90+/CD117(lo)), with the ... More
Vibrio cholerae VibF Is Required for Vibriobactin Synthesis and Is a Member of the Family of Nonribosomal Peptide Synthetases
AuthorsJoan R. Butterton,1,* Michael H. Choi,1 Paula I. Watnick,1 Patricia A. Carroll,1, and Stephen B. Calderwood1,2
JournalJ Bacteriol
PubMed ID10692380
A 7.5-kbp fragment of chromosomal DNA downstream of the Vibrio choleraevibriobactin outer membrane receptor, viuA, and the vibriobactin utilization gene, viuB, wasrecovered from a Sau3A lambda library of O395 chromosomal DNA. By analogy with thegenetic organization of the Escherichia coli enterobactin gene cluster, in which theenterobactin biosynthetic and transport genes ... More
Identification of a Moraxella catarrhalis outer membrane protein exhibiting both adhesin and lipolytic activities.
AuthorsTimpe JM, Holm MM, Vanlerberg SL, Basrur V, Lafontaine ER,
JournalInfect Immun
PubMed ID12874311
The UspA1 and Hag proteins have previously been shown to be involved in the ability of the Moraxella catarrhalis wild-type strain O35E to bind to human Chang and A549 cells, respectively. In an effort to identify novel adhesins, we generated a plasmid library of M. catarrhalis DNA fragments, which was ... More
Determination of infectious load of Mycoplasma genitalium in clinical samples of human vaginal cells.
AuthorsBlaylock MW, Musatovova O, Baseman JG, Baseman JB,
JournalJ Clin Microbiol
PubMed ID14766847
Mycoplasma genitalium is a leading cause of chlamydia-negative, nongonoccocal urethritis and has been directly implicated in numerous other genitourinary as well as extragenitourinary tract pathologies. Detection of M. genitalium has relied almost entirely on PCR amplification of clinical specimens and evidence of seroconversion since these mycoplasmas are highly fastidious and ... More
Effects of changes in membrane sodium flux on virulence gene expression in Vibrio cholerae.
AuthorsHase CC, Mekalanos JJ
JournalProc Natl Acad Sci U S A
PubMed ID10077658
The expression of several virulence factors of Vibrio cholerae is coordinately regulated by the ToxT molecule and the membrane proteins TcpP/H and ToxR/S, which are required for toxT transcription. To identify proteins that negatively affect toxT transcription, we screened transposon mutants of V. cholerae carrying a chromosomally integrated toxT::lacZ reporter ... More
Absence of p16INK4a and truncation of ARF tumor suppressors in chickens.
AuthorsKim SH, Mitchell M, Fujii H, Llanos S, Peters G,
JournalProc Natl Acad Sci U S A
PubMed ID12506196
The INK4b-ARF-INK4a locus on human chromosome 9p21 (Human Genome Organization designation CDKN2B-CDKN2A), and the corresponding locus on mouse chromosome 4, encodes three distinct products: two members of the INK4 cyclin-dependent kinase inhibitor family and a completely unrelated protein, ARF, whose carboxyl-terminal half is specified by the second exon of INK4a ... More
Identification and characterization of two alternative splice variants of human interleukin-2.
AuthorsTsytsikov VN, Yurovsky VV, Atamas SP, Alms WJ, White B
JournalJ Biol Chem
PubMed ID8798495
Our previous work showed that alternative splicing is used to make an inhibitory variant of human interleukin (IL)-4. Because of homology between IL-4 and IL-2 proteins and receptors, we tested whether alternative splicing is used to generate similar inhibitory variants of human IL-2. Messenger RNA from peripheral blood mononuclear cells ... More
Relevance of immunoglobulin G Fc receptor polymorphism to recurrence of adult periodontitis in Japanese patients.
AuthorsKobayashi T, Westerdaal NA, Miyazaki A, van der Pol WL, Suzuki T, Yoshie H, van de Winkel JG, Hara K
JournalInfect Immun
PubMed ID9284119
Polymorphonuclear neutrophil (PMN) phagocytic function has been shown to be impaired in some patients with periodontitis. PMN constitutively express members of two immunoglobulin G receptor (Fc gammaR) classes: Fc gammaRIIa (CD32) and Fc gammaRIIIb (CD16). Both receptors exhibit genetically determined structural and functional biallelic polymorphisms, which have been shown to ... More
MIF signal transduction initiated by binding to CD74.
AuthorsLeng L, Metz CN, Fang Y, Xu J, Donnelly S, Baugh J, Delohery T, Chen Y, Mitchell RA, Bucala R
JournalJ Exp Med
PubMed ID12782713
Macrophage migration inhibitory factor (MIF) accounts for one of the first cytokine activities to have been described, and it has emerged recently to be an important regulator of innate and adaptive immunity. MIF is an upstream activator of monocytes/macrophages, and it is centrally involved in the pathogenesis of septic shock, ... More
Patient-specific induced pluripotent stem-cell-derived models of LEOPARD syndrome.
AuthorsCarvajal-Vergara X, Sevilla A, D'Souza SL, Ang YS, Schaniel C, Lee DF, Yang L, Kaplan AD, Adler ED, Rozov R, Ge Y, Cohen N, Edelmann LJ, Chang B, Waghray A, Su J, Pardo S, Lichtenbelt KD, Tartaglia M, Gelb BD, Lemischka IR
JournalNature
PubMed ID20535210
The generation of reprogrammed induced pluripotent stem cells (iPSCs) from patients with defined genetic disorders holds the promise of increased understanding of the aetiologies of complex diseases and may also facilitate the development of novel therapeutic interventions. We have generated iPSCs from patients with LEOPARD syndrome (an acronym formed from ... More