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1.
Genome Biol Evol ; 2023 May 08.
Article in English | MEDLINE | ID: mdl-37154102

ABSTRACT

The intracellular endosymbiotic proteobacteria Wolbachia have evolved across the phyla nematoda and arthropoda. In Wolbachia phylogeny, supergroup F is the only clade known so far with members from both arthropod and filarial nematode hosts and therefore can provide unique insights into their evolution and biology. In this study, 4 new supergroup F Wolbachia genomes have been assembled using a metagenomic assembly and binning approach, wMoz and wMpe from the human filarial parasites Mansonella ozzardi and Mansonella perstans, and wOcae and wMoviF from the blue mason bee Osmia caerulescens and the sheep ked Melophagus ovinus respectively. A comprehensive phylogenomic analysis revealed two distinct lineages of filarial Wolbachia in supergroup F, indicating multiple horizontal transfer events between arthropod and nematode hosts. The analysis also reveals that the evolution of Wolbachia-filaria symbioses is accompanied by a convergent pseudogenization and loss of the bacterioferritin gene, a phenomenon found to be shared by all filarial Wolbachia, even those outside supergroup F. These observations indicate that differences in heme metabolism might be a key feature distinguishing filarial and arthropod Wolbachia. The new genomes provide a valuable resource for further studies on symbiosis, evolution, and the discovery of new antibiotics to treat mansonellosis.

2.
PLoS One ; 17(5): e0268692, 2022.
Article in English | MEDLINE | ID: mdl-35617204

ABSTRACT

Effective management of the COVID-19 pandemic requires widespread and frequent testing of the population for SARS-CoV-2 infection. Saliva has emerged as an attractive alternative to nasopharyngeal samples for surveillance testing as it does not require specialized personnel or materials for its collection and can be easily provided by the patient. We have developed a simple, fast, and sensitive saliva-based testing workflow that requires minimal sample treatment and equipment. After sample inactivation, RNA is quickly released and stabilized in an optimized buffer, followed by reverse transcription loop-mediated isothermal amplification (RT-LAMP) and detection of positive samples using a colorimetric and/or fluorescent readout. The workflow was optimized using 1,670 negative samples collected from 172 different individuals over the course of 6 months. Each sample was spiked with 50 copies/µL of inactivated SARS-CoV-2 virus to monitor the efficiency of viral detection. Using pre-defined clinical samples, the test was determined to be 100% specific and 97% sensitive, with a limit of detection of 39 copies/mL. The method was successfully implemented in a CLIA laboratory setting for workplace surveillance and reporting. From April 2021-February 2022, more than 30,000 self-collected samples from 755 individuals were tested and 85 employees tested positive mainly during December and January, consistent with high infection rates in Massachusetts and nationwide.


Subject(s)
COVID-19 , SARS-CoV-2 , COVID-19/diagnosis , COVID-19/epidemiology , Humans , Molecular Diagnostic Techniques/methods , Nucleic Acid Amplification Techniques/methods , Pandemics , RNA, Viral/genetics , Saliva , Sensitivity and Specificity , Workflow , Workplace
3.
J Am Mosq Control Assoc ; 38(1): 7-18, 2022 03 01.
Article in English | MEDLINE | ID: mdl-35276729

ABSTRACT

Eastern equine encephalitis virus (EEEV) is a highly pathogenic alphavirus that causes periodic outbreaks in the eastern USA. Mosquito abatement programs are faced with various challenges with surveillance and control of EEEV and other mosquito-borne illnesses. Environmental sampling of mosquito populations can be technically complex. Here we report the identification of biomarkers, development and validation of a colorimetric reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay for the detection of EEEV. Positive samples are easily visualized by a color change from pink to yellow. The assay was validated using EEEV from viral culture, experimentally spiked mosquito pools, and previously tested mosquito pools. The RT-LAMP assay detected viral titers down to approximately 10% of what would be present in a single infectious mosquito, based upon EEEV viral titers determined by previous competency studies. The RT-LAMP assay efficiently detected EEEV in combined aliquots from previously homogenized pools of mosquitoes, allowing up to 250 individual mosquitoes to be tested in a single reaction. No false positive results were obtained from RNA prepared from negative mosquito pools acquired from known and potential EEEV vectors. The colorimetric RT-LAMP assay is highly accurate, technically simple, and does not require sophisticated equipment, making it a cost-effective alternative to real time reverse transcriptase-polymerase chain reaction (RT-PCR) for vector surveillance.


Subject(s)
Culicidae , Encephalitis Virus, Eastern Equine , Animals , Colorimetry , Horses , Molecular Diagnostic Techniques , Mosquito Vectors , Nucleic Acid Amplification Techniques , RNA-Directed DNA Polymerase , Sensitivity and Specificity
4.
PLoS Negl Trop Dis ; 15(1): e0008926, 2021 01.
Article in English | MEDLINE | ID: mdl-33465080

ABSTRACT

BACKGROUND: The impact of large scale Mass Drug Adminstration (MDA) of ivermectin on active onchocerciasis transmission by Simulium damnosum, which transmits the parasite O. volvulus is of great importance for onchocerciasis control programmes. We investigated in the Mbam river system area, the impact of MDA of ivermectin on entomological indices and also verify if there are river system factors that could have favoured the transmission of onchocerciasis in this area and contribute to the persistence of disease. We compared three independent techniques to detect Onchocerca larvae in blackflies and also analyzed the river system within 9 months post-MDA of ivermectin. METHOD: Simulium flies were captured before and after 1, 3, 6 and 9months of ivermectin-MDA. The biting rate was determined and 41% of the flies dissected while the rest were grouped into pools of 100 flies for DNA extraction. The extracted DNA was then subjected to O-150 LAMP and real-time PCR for the detection of infection by Onchocerca species using pool screening. The river system was analysed and the water discharge compared between rainy and dry seasons. PRINCIPAL FINDINGS: We used human landing collection method (previously called human bait) to collect 22,274 adult female Simulium flies from Mbam River System. Of this number, 9,134 were dissected while 129 pools constituted for molecular screening. Overall biting and parous rates of 1113 flies/man/day and 24.7%, respectively, were observed. All diagnostic techniques detected similar rates of O. volvulus infection (P = 0.9252) and infectivity (P = 0.4825) at all monitoring time points. Onchocerca ochengi larvae were only detected in 2 of the 129 pools. Analysis of the river drainage revealed two hydroelectric dams constructed on the tributaries of the Mbam river were the key contributing factor to the high-water discharge during both rainy and dry seasons. CONCLUSION: Results from fly dissection (Microscopy), real-time PCR and LAMP revealed the same trends pre- and post-MDA. The infection rate with animal Onchocerca sp was exceptionally low. The dense river system generate important breeding sites that govern the abundance of Simulium during both dry and rainy seasons.


Subject(s)
Onchocerca/isolation & purification , Onchocerciasis/prevention & control , Onchocerciasis/transmission , Simuliidae/parasitology , Animals , Antiparasitic Agents/therapeutic use , Cameroon/epidemiology , Female , Humans , Insect Bites and Stings/epidemiology , Insect Vectors/parasitology , Ivermectin/therapeutic use , Lysosomal-Associated Membrane Protein 3 , Mass Drug Administration , Onchocerca/classification , Onchocerca/genetics , Onchocerciasis/diagnosis , Real-Time Polymerase Chain Reaction , Rivers , Seasons , Simuliidae/physiology
6.
Parasit Vectors ; 14(1): 19, 2021 Jan 06.
Article in English | MEDLINE | ID: mdl-33407819

ABSTRACT

BACKGROUND: The mass drug administration of ivermectin for onchocerciasis control has contributed to a significant drop in Loa loa microfilaria loads in humans that has, in turn, led to reduction of infection levels in Chrysops vectors. Accurate parasite detection is essential for assessing loiasis transmission as it provides a potential alternative or indirect strategy for addressing the problem of co-endemic loiasis and lymphatic filariasis through the Onchocerciasis Elimination Programme and it further reflects the true magnitude of the loiasis problem as excess human mortality has been reported to be associated with the disease. Although microscopy is the gold standard for detecting the infection, the sensitivity of this method is compromised when the intensity of infection is low. The loop-mediated isothermal amplification (LAMP) assay of parasite DNA is an alternative method for detecting infection which offers operational simplicity, rapidity and versatility of visual readout options. The aim of this study was to validate the Loa loa LAMP assay for the detection of infected Chrysops spp. under experimental and natural field conditions. METHODS: Two sets of 18 flies were fed on volunteers with either a low (< 10 mf/ml) or high (> 30,000mf/ml) microfilarial load. The fed flies were maintained under laboratory conditions for 14 days and then analysed using LAMP for the detection of L. loa infection. In addition, a total of 9270 flies were collected from the north-west, east, and south-west regions (SW 1 and 2) of Cameroon using sweep nets and subjected to microscopy (7841 flies) and LAMP (1291 flies plus 138 nulliparous flies) analyses. RESULTS: The LAMP assay successfully detected parasites in Chrysops fed on volunteers with both low and high microfilariaemic loads. Field validation and surveillance studies revealed LAMP-based infection rates ranging from 0.5 to 31.6%, with the lowest levels in SW 2 and the highest infection rates in SW 1. The LAMP assay detected significantly higher infection rates than microscopy in four of the five study sites. CONCLUSION: This study demonstrated the potential of LAMP as a simple surveillance tool. It was found to be more sensitive than microscopy for the detection of experimental and natural L. loa infections in Chrysops vectors.


Subject(s)
Diptera/parasitology , Loa/isolation & purification , Molecular Diagnostic Techniques/methods , Nucleic Acid Amplification Techniques/methods , Animals , Cameroon/epidemiology , DNA, Helminth , Disease Reservoirs , Disease Vectors , Humans , Insect Vectors/parasitology , Loa/genetics , Loiasis/diagnosis , Loiasis/parasitology , Microfilariae/isolation & purification , Microscopy , Onchocerciasis/epidemiology , Parasite Load
7.
BMC Infect Dis ; 20(1): 726, 2020 Oct 02.
Article in English | MEDLINE | ID: mdl-33008333

ABSTRACT

BACKGROUND: Ivermectin is an excellent microfilaricide against Onchocerca volvulus. However, in some regions, long term use of ivermectin has resulted in sub-optimal responses to the treatment. More data to properly document the phenomenon in various contexts of ivermectin mass drug administration (IVM-MDA) is needed. Also, there is a need to accurately monitor a possible repopulation of skin by microfilariae following treatment. Skin snip microscopy is known to have a low sensitivity in individuals with light infections, which can be the case following treatment. This study was designed with two complementary objectives: (i) to assess the susceptibility of O. volvulus microfilariae to ivermectin in two areas undergoing IVM-MDA for different lengths of time, and (ii) to document the repopulation of skin by the O. volvulus microfilariae following treatment, using 3 independent diagnostic techniques. METHOD: Identified microfilaridermic individuals were treated with ivermectin and re-examined after 1, 3, and 6 months using microscopy, actin real-time PCR (actin-qPCR) and O-150 LAMP assays. Susceptibility to ivermectin and trends in detecting reappearance of skin microfilariae were determined using three techniques. Microscopy was used as an imperfect gold standard to determine the performance of actin-qPCR and LAMP. RESULTS: In Bafia with over 20 years of IVM-MDA, 11/51 (21.6%) direct observe treated microfilaridemic participants were still positive for skin microfilariae after 1 month. In Melong, with 10 years of IVM-MDA, 2/29 (6.9%) treated participants were still positive. The microfilarial density reduction per skin biopsy within one month following treatment was significantly lower in participants from Bafia. In both study sites, the molecular techniques detected higher proportions of infected individuals than microscopy at all monitoring time points. LAMP demonstrated the highest levels of sensitivity and real-time PCR was found to have the highest specificity. CONCLUSION: Patterns in skin mirofilariae clearance and repopulation were established. O. volvulus worms from Bafia with higher number of annual MDA displayed a lower clearance and higher repopulation rate after treatment with ivermectin. Molecular assays displayed higher sensitivity in monitoring O. volvulus microfilaridemia within six months following treatment.


Subject(s)
Antiparasitic Agents/therapeutic use , Ivermectin/therapeutic use , Onchocerca volvulus/physiology , Onchocerciasis/drug therapy , Skin/pathology , Adolescent , Animals , Biopsy , Cameroon , Child , Child, Preschool , Female , Humans , Male , Mass Drug Administration , Microscopy , Real-Time Polymerase Chain Reaction , Young Adult
8.
PLoS One ; 12(2): e0169011, 2017.
Article in English | MEDLINE | ID: mdl-28199317

ABSTRACT

Accurate detection of filarial parasites in humans is essential for the implementation and evaluation of mass drug administration programs to control onchocerciasis and lymphatic filariasis. Determining the infection levels in vector populations is also important for assessing transmission, deciding when drug treatments may be terminated and for monitoring recrudescence. Immunological methods to detect infection in humans are available, however, cross-reactivity issues have been reported. Nucleic acid-based molecular assays offer high levels of specificity and sensitivity, and can be used to detect infection in both humans and vectors. In this study we developed loop-mediated isothermal amplification (LAMP) tests to detect three different filarial DNAs in human and insect samples using pH sensitive dyes for enhanced visual detection of amplification. Furthermore, reactions were performed in a portable, non-instrumented nucleic acid amplification (NINA) device that provides a stable heat source for LAMP. The efficacy of several strand displacing DNA polymerases were evaluated in combination with neutral red or phenol red dyes. Colorimetric NINA-LAMP assays targeting Brugia Hha I repeat, Onchocerca volvulus GST1a and Wuchereria bancrofti LDR each exhibit species-specificity and are also highly sensitive, detecting DNA equivalent to 1/10-1/5000th of one microfilaria. Reaction times varied depending on whether a single copy gene (70 minutes, O. volvulus) or repetitive DNA (40 min, B. malayi and W. bancrofti) was employed as a biomarker. The NINA heater can be used to detect multiple infections simultaneously. The accuracy, simplicity and versatility of the technology suggests that colorimetric NINA-LAMP assays are ideally suited for monitoring the success of filariasis control programs.


Subject(s)
Aedes/parasitology , DNA, Helminth/genetics , Elephantiasis, Filarial , Nucleic Acid Amplification Techniques/methods , Onchocerca volvulus/genetics , Onchocerciasis , Simuliidae/parasitology , Wuchereria bancrofti/genetics , Animals , Colorimetry , Elephantiasis, Filarial/diagnosis , Elephantiasis, Filarial/genetics , Humans , Onchocerciasis/diagnosis , Onchocerciasis/genetics
9.
Mol Biochem Parasitol ; 210(1-2): 10-12, 2016.
Article in English | MEDLINE | ID: mdl-27473357

ABSTRACT

Accurate, simple and affordable diagnostics are needed to detect Onchocerca volvulus infection in humans. A newly developed colorimetric loop-mediated isothermal amplification (LAMP) assay was compared to PCR and skin snip analysis for diagnosis of onchocerciasis. The robustness and simplicity of the assay indicates that it may be a useful field tool for surveillance in endemic countries.


Subject(s)
Nucleic Acid Amplification Techniques , Onchocerca volvulus/genetics , Onchocerciasis/diagnosis , Onchocerciasis/parasitology , Polymerase Chain Reaction , Skin/parasitology , Animals , Humans , Polymerase Chain Reaction/methods , Reproducibility of Results , Sensitivity and Specificity
10.
PLoS Negl Trop Dis ; 10(2): e0004443, 2016 Feb.
Article in English | MEDLINE | ID: mdl-26870958

ABSTRACT

INTRODUCTION: Plasmodium vivax malaria has a wide geographic distribution and poses challenges to malaria elimination that are likely to be greater than those of P. falciparum. Diagnostic tools for P. vivax infection in non-reference laboratory settings are limited to microscopy and rapid diagnostic tests but these are unreliable at low parasitemia. The development and validation of a high-throughput and sensitive assay for P. vivax is a priority. METHODS: A high-throughput LAMP assay targeting a P. vivax mitochondrial gene and deploying colorimetric detection in a 96-well plate format was developed and evaluated in the laboratory. Diagnostic accuracy was compared against microscopy, antigen detection tests and PCR and validated in samples from malaria patients and community controls in a district hospital setting in Sabah, Malaysia. RESULTS: The high throughput LAMP-P. vivax assay (HtLAMP-Pv) performed with an estimated limit of detection of 1.4 parasites/ µL. Assay primers demonstrated cross-reactivity with P. knowlesi but not with other Plasmodium spp. Field testing of HtLAMP-Pv was conducted using 149 samples from symptomatic malaria patients (64 P. vivax, 17 P. falciparum, 56 P. knowlesi, 7 P. malariae, 1 mixed P. knowlesi/P. vivax, with 4 excluded). When compared against multiplex PCR, HtLAMP-Pv demonstrated a sensitivity for P. vivax of 95% (95% CI 87-99%); 61/64), and specificity of 100% (95% CI 86-100%); 25/25) when P. knowlesi samples were excluded. HtLAMP-Pv testing of 112 samples from asymptomatic community controls, 7 of which had submicroscopic P. vivax infections by PCR, showed a sensitivity of 71% (95% CI 29-96%; 5/7) and specificity of 93% (95% CI87-97%; 98/105). CONCLUSION: This novel HtLAMP-P. vivax assay has the potential to be a useful field applicable molecular diagnostic test for P. vivax infection in elimination settings.


Subject(s)
High-Throughput Screening Assays/methods , Malaria, Vivax/parasitology , Nucleic Acid Amplification Techniques/methods , Plasmodium vivax/isolation & purification , Humans , Malaria, Vivax/diagnosis , Malaria, Vivax/prevention & control , Malaysia , Plasmodium/classification , Plasmodium/genetics , Plasmodium/isolation & purification , Plasmodium vivax/classification , Plasmodium vivax/genetics
11.
PLoS One ; 10(9): e0139286, 2015.
Article in English | MEDLINE | ID: mdl-26414073

ABSTRACT

Loa loa infections have emerged as a serious public health problem in patients co-infected with Onchocerca volvulus or Wuchereria bancrofti because of severe adverse neurological reactions after treatment with ivermectin. Accurate diagnostic tests are needed for careful mapping in regions where mass drug administration is underway. Loop-mediated isothermal amplification (LAMP) has become a widely adopted screening method because of its operational simplicity, rapidity and versatility of visual detection readout options. Here, we present a multi-step bioinformatic pipeline to generate diagnostic candidates suitable for LAMP and experimentally validate this approach using one of the identified candidates to develop a species-specific LAMP assay for L. loa. The pipeline identified ~140 new L. loa specific DNA repeat families as putative biomarkers of infection. The consensus sequence of one family, repeat family 4 (RF4), was compiled from ~ 350 sequences dispersed throughout the L. loa genome and maps to a L. loa-specific region of the long terminal repeats found at the boundaries of Bel/Pao retrotransposons. PCR and LAMP primer sets targeting RF4 specifically amplified L. loa but not W. bancrofti, O. volvulus, Brugia malayi, human or mosquito DNA. RF4 LAMP detects the DNA equivalent of one microfilaria (100 pg) in 25-30 minutes and as little as 0.060 pg of L. loa DNA (~1/1600th of a microfilaria) purified from spiked blood samples in approximately 50 minutes. In summary, we have successfully employed a bioinformatic approach to mine the L. loa genome for species-specific repeat families that can serve as new DNA biomarkers for LAMP. The RF4 LAMP assay shows promise as a field tool for the implementation and management of mass drug administration programs and warrants further testing on clinical samples as the next stage in development towards this goal.


Subject(s)
DNA, Helminth/genetics , Genome, Helminth , Loa/genetics , Loiasis/diagnosis , Loiasis/parasitology , Animals , Biomarkers/metabolism , Computational Biology , DNA, Helminth/blood , Humans , Loiasis/blood , Polymerase Chain Reaction , Sensitivity and Specificity , Species Specificity
12.
Trends Parasitol ; 31(8): 391-400, 2015 Aug.
Article in English | MEDLINE | ID: mdl-25978936

ABSTRACT

Filarial parasites are tissue-dwelling nematodes responsible for some of the most important neglected tropical diseases. All are transmitted by blood-sucking arthropod. Onchocerciasis and lymphatic filariasis in particular are the cause of much disfigurement and morbidity. Accurate parasite detection is essential for the success of filariasis control programs. The current toolbox for diagnosis and surveillance is limited because many of the available tools suffer from lack of sensitivity and specificity, and/or are cost-prohibitive. We review the methods currently in use and discuss the prospects for developing new molecular diagnostic (MDx) tools based on nucleic acid detection. We briefly describe recent developments in isothermal nucleic acid amplification and detection, and focus on emerging technologies that are field-deployable or suitable for low-resource settings.


Subject(s)
Filariasis/diagnosis , Filariasis/prevention & control , Molecular Diagnostic Techniques/trends , Population Surveillance , Animals , Filariasis/parasitology , Humans , Immunologic Tests , Molecular Diagnostic Techniques/standards , Nucleic Acid Amplification Techniques
13.
Int J Parasitol ; 45(9-10): 579-83, 2015 Aug.
Article in English | MEDLINE | ID: mdl-26004246

ABSTRACT

The complement of the Brugia malayi microRNA-71 was inserted into the 3' untranslated region of a reporter plasmid, resulting in a decrease in reporter activity. Mutation of the seed sequence restored activity. Insertion of the 3' untranslated regions from two algorithm-predicted putative target genes into the reporter resulted in a similar decrease in activity; mutation of the predicted target sequences restored activity. These experiments demonstrate that B. malayi microRNA targets may be predicted using current algorithms and describe a functional assay to confirm predicted targets.


Subject(s)
Brugia malayi/metabolism , MicroRNAs/metabolism , Animals , Animals, Genetically Modified , Base Sequence , Brugia malayi/genetics , Gene Expression Regulation , Genes, Reporter , Genetic Markers , HSP70 Heat-Shock Proteins/genetics , HSP70 Heat-Shock Proteins/metabolism , Luciferases/genetics , Luciferases/metabolism , MicroRNAs/genetics
14.
PLoS Negl Trop Dis ; 8(9): e3145, 2014 Sep.
Article in English | MEDLINE | ID: mdl-25188325

ABSTRACT

Myristoylation is a lipid modification involving the addition of a 14-carbon unsaturated fatty acid, myristic acid, to the N-terminal glycine of a subset of proteins, a modification that promotes their binding to cell membranes for varied biological functions. The process is catalyzed by myristoyl-CoA:protein N-myristoyltransferase (NMT), an enzyme which has been validated as a drug target in human cancers, and for infectious diseases caused by fungi, viruses and protozoan parasites. We purified Caenorhabditis elegans and Brugia malayi NMTs as active recombinant proteins and carried out kinetic analyses with their essential fatty acid donor, myristoyl-CoA and peptide substrates. Biochemical and structural analyses both revealed that the nematode enzymes are canonical NMTs, sharing a high degree of conservation with protozoan NMT enzymes. Inhibitory compounds that target NMT in protozoan species inhibited the nematode NMTs with IC50 values of 2.5-10 nM, and were active against B. malayi microfilariae and adult worms at 12.5 µM and 50 µM respectively, and C. elegans (25 µM) in culture. RNA interference and gene deletion in C. elegans further showed that NMT is essential for nematode viability. The effects observed are likely due to disruption of the function of several downstream target proteins. Potential substrates of NMT in B. malayi are predicted using bioinformatic analysis. Our genetic and chemical studies highlight the importance of myristoylation in the synthesis of functional proteins in nematodes and have shown for the first time that NMT is required for viability in parasitic nematodes. These results suggest that targeting NMT could be a valid approach for the development of chemotherapeutic agents against nematode diseases including filariasis.


Subject(s)
Acyltransferases/chemistry , Brugia malayi/enzymology , Caenorhabditis elegans/enzymology , Acyltransferases/antagonists & inhibitors , Acyltransferases/isolation & purification , Animals , Computational Biology , Drug Delivery Systems , Molecular Targeted Therapy
15.
PLoS One ; 9(5): e96498, 2014.
Article in English | MEDLINE | ID: mdl-24824352

ABSTRACT

Human filarial parasites infect an estimated 120 million people in 80 countries worldwide causing blindness and the gross disfigurement of limbs and genitals. An understanding of RNA-mediated regulatory pathways in these parasites may open new avenues for treatment. Toward this goal, small RNAs from Brugia malayi adult females, males and microfilariae were cloned for deep-sequencing. From ∼ 30 million sequencing reads, 145 miRNAs were identified in the B. malayi genome. Some microRNAs were validated using the p19 RNA binding protein and qPCR. B. malayi miRNAs segregate into 99 families each defined by a unique seed sequence. Sixty-one of the miRNA families are highly conserved with homologues in arthropods, vertebrates and helminths. Of those miRNAs not highly conserved, homologues of 20 B. malayi miRNA families were found in vertebrates. Nine B. malayi miRNA families appear to be filarial-specific as orthologues were not found in other organisms. The miR-2 family is the largest in B. malayi with 11 members. Analysis of the sequences shows that six members result from a recent expansion of the family. Library comparisons found that 1/3 of the B. malayi miRNAs are differentially expressed. For example, miR-71 is 5-7X more highly expressed in microfilariae than adults. Studies suggest that in C.elegans, miR-71 may enhance longevity by targeting the DAF-2 pathway. Characterization of B. malayi miRNAs and their targets will enhance our understanding of their regulatory pathways in filariads and aid in the search for novel therapeutics.


Subject(s)
Brugia malayi/genetics , Genome, Helminth , MicroRNAs/genetics , Animals , Gene Library
16.
J Cancer Educ ; 28(4): 611-6, 2013 Dec.
Article in English | MEDLINE | ID: mdl-23996205

ABSTRACT

Melanoma awareness was briefly assessed at walk/runs held simultaneously in Philadelphia PA, Phoenix AZ, and Seattle WA. Of the participants, 75 % (1521) answered short questions during event registration. Among 1,036 respondents aged 14 years and older, 66 % reported knowing melanoma warning signs. Significantly more respondents with melanoma family history reported having a physician-administered skin exam and knowing warning signs. More than one third of walk/run participants reported no definitive melanoma warning sign knowledge. Self-reported melanoma awareness and detection indices were lowest among Phoenix participants; the event city with the greatest annual sun exposure. Educational efforts for melanoma awareness are critically needed. Selected results of this project were presented in a poster forum at the 2006 Congress for Epidemiology meeting held in Seattle, WA (June 2006).


Subject(s)
Attitude to Health , Awareness , Health Communication , Health Education , Melanoma/prevention & control , Needs Assessment , Sunlight/adverse effects , Adolescent , Adult , Child , Child, Preschool , Female , Health Knowledge, Attitudes, Practice , Humans , Infant , Infant, Newborn , Male , Melanoma/etiology , Middle Aged , Program Development , Risk Factors , Surveys and Questionnaires , Young Adult
17.
PLoS Negl Trop Dis ; 6(12): e1948, 2012.
Article in English | MEDLINE | ID: mdl-23272258

ABSTRACT

In this study we developed and evaluated a Brugia Hha I repeat loop-mediated isothermal amplification (LAMP) assay for the rapid detection of Brugia genomic DNA. Amplification was detected using turbidity or fluorescence as readouts. Reactions generated a turbidity threshold value or a clear visual positive within 30 minutes using purified genomic DNA equivalent to one microfilaria. Similar results were obtained using DNA isolated from blood samples containing B. malayi microfilariae. Amplification was specific to B. malayi and B. timori, as no turbidity was observed using DNA from the related filarial parasites Wuchereria bancrofti, Onchocerca volvulus or Dirofilaria immitis, or from human or mosquito. Furthermore, the assay was most robust using a new strand-displacing DNA polymerase termed Bst 2.0 compared to wild-type Bst DNA polymerase, large fragment. The results indicate that the Brugia Hha I repeat LAMP assay is rapid, sensitive and Brugia-specific with the potential to be developed further as a field tool for diagnosis and mapping of brugian filariasis.


Subject(s)
Brugia malayi/isolation & purification , Filariasis/diagnosis , Filariasis/parasitology , Molecular Diagnostic Techniques/methods , Nucleic Acid Amplification Techniques/methods , Parasitology/methods , Animals , Brugia malayi/genetics , DNA, Helminth/genetics , DNA, Helminth/isolation & purification , Dogs , Fluorometry , Humans , Nephelometry and Turbidimetry , Sensitivity and Specificity , Temperature , Time Factors
18.
Biotechniques ; 48(6): xvii-xxiii, 2010 Jun.
Article in English | MEDLINE | ID: mdl-20569217

ABSTRACT

p19 RNA binding protein from the Carnation Italian ringspot virus (CIRV) is an RNA-silencing suppressor that binds small interfering RNA (siRNA) with high affinity. We created a bifunctional p19 fusion protein with an N-terminal maltose binding protein (MBP), for protein purification, and a C-terminal chitin binding domain (CBD) to bind p19 to chitin magnetic beads. The fusion protein binds dsRNAs in the size range of 20-23 nucleotides, but does not bind ssRNA or dsDNA. Relative affinities of the p19 fusion protein for different-length RNA and DNA substrates were determined. Binding specificity of the p19 fusion protein for small dsRNA allows detection of miRNA:RNA probe duplexes. Using radioactive RNA probes, we were able to detect low levels of miRNAs in the sub-femtomole range and in the presence of a million-fold excess of total RNA. Detection is linear over three logs. Unlike most nucleic acid detection methods, p19 selects for RNA hybrids of correct length and structure. Rules for designing optimal RNA probes for p19 detection of miRNAs were determined by in vitro binding of 18 different dsRNA oligos to p19. These studies demonstrate the potential of p19 fusion protein to detect miRNAs and isolate endogenous siRNAs.


Subject(s)
MicroRNAs/analysis , RNA, Small Interfering/isolation & purification , RNA, Small Interfering/metabolism , Viral Proteins/metabolism , Animals , Limit of Detection , Maltose-Binding Proteins , Periplasmic Binding Proteins/biosynthesis , Protein Binding , RNA-Binding Proteins/chemistry , RNA-Binding Proteins/metabolism , Rats , Recombinant Fusion Proteins/biosynthesis , Tombusvirus/genetics , Tombusvirus/metabolism
19.
Mol Biochem Parasitol ; 169(2): 87-94, 2010 Feb.
Article in English | MEDLINE | ID: mdl-19874857

ABSTRACT

Characterization of small RNAs from the filarial nematode Brugia malayi is the initial step in understanding their role in gene silencing. Both RNA cloning and bioinformatics were used to identify 32 microRNAs (miRNAs) belonging to 24 families. One family, miR-36 only occurs in helminths including B. malayi. Several of the miRNAs are arranged in clusters and are coordinately expressed as determined by northern blot analysis. In addition, small RNAs were identified from Pao/Bleo retrotransposons and their associated repeat sequences indicating that B. malayi uses an RNAi mechanism to maintain genome integrity. Analysis of these data provides a first glimpse into how small RNA-mediated silencing pathways regulate the parasitic life cycle of B. malayi.


Subject(s)
Brugia malayi/genetics , MicroRNAs/genetics , RNA, Helminth/genetics , Animals , Base Sequence , Blotting, Northern/methods , Cloning, Molecular/methods , Computational Biology/methods , Gene Expression Profiling , Models, Molecular , Molecular Sequence Data , Multigene Family , Nucleic Acid Conformation
20.
Mol Biochem Parasitol ; 155(1): 1-8, 2007 Sep.
Article in English | MEDLINE | ID: mdl-17570539

ABSTRACT

Cleavage by subtilisin-like proteases (subtilases) is an essential step in post-translational processing of proteins found in organisms ranging from yeast to mammals. Our knowledge of the diversity of this protease family in nematodes is aided by the rapid increase in sequence information, especially from the Brugia malayi genome project. Genetic studies of the subtilases in Caenorhabitis elegans give valuable insight into the biological function of these proteases in other nematode species. In this review, we focus on the subtilases in filarial nematodes as well as other parasitic and free-living nematodes in comparison to what is known in C. elegans. Topics to be addressed include expansion and diversity of the subtilase gene family during evolution, enhanced complexity created by alternative RNA splicing, molecular and biochemical characterization of the different subtilases and the challenges of designing subtilase-specific inhibitors for parasitic nematodes.


Subject(s)
Helminth Proteins , Nematoda , Subtilisin , Animals , Antinematodal Agents/pharmacology , Antinematodal Agents/therapeutic use , Helminth Proteins/genetics , Helminth Proteins/metabolism , Humans , Nematoda/drug effects , Nematoda/enzymology , Nematoda/genetics , Nematode Infections/drug therapy , Nematode Infections/parasitology , Subtilisin/antagonists & inhibitors , Subtilisin/classification , Subtilisin/genetics , Subtilisin/metabolism
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