Hidden Microbiome

bacteria-811861_1920The Center for Disease Control reported that lower respiratory tract infections (LRTI), otherwise known as Pneumonia, were responsible for approximately 53,000 deaths in 2013. In 2010, 37,000 patients with Pneumonia died while admitted in the hospital. According to the World Health Organization, Pneumonia was responsible for 15% of all deaths of children under 5 years old. In a study recently published by the journal MicrobiomeResearchers from the University of Pennsylvania describe in this study that approximately 15% of patients hospitalized with lower respiratory tract infections experience respiratory failure and are forced to undergo mechanical ventilation. Additionally, 15% of patients who are forced to undergo mechanical ventilation not as a result of (LRTI) will in fact develop a lower respiratory tract infection.

Kelly et al. sought out to gain greater insight into the microbiota of the respiratory tract of intubated patients by way of 16s rRNA gene sequencing. In the past, researchers and diagnosticians would have to rely on their ability to grow certain bacteria using a growth culture in order to identify the bacteria present during infection. Unfortunately, this technique is often times inadequate as many bacteria are unable to grow under standard laboratory conditions. However, scientific advancements such as PCR and Next-generation sequencing have made 16s rRNA gene sequencing a more reliable tool to complete taxonomic studies. Kelly et al. state “16s ribosomal RNA (rRNA) gene sequencing has allowed culture-independent characterization of the bacterial communities in health and disease, termed the microbiome.” In many cases, 16s rRNA gene sequencing was able to confirm the results of traditional culture-based data, but in addition, 16s rRNA gene sequencing was also able to identify “unexpected bacteria”, according to Kelly et al. in relation to LRTI that had previously been unknown as LRTI pathogens.

Your Microbiome: An Early Indicator of Type II Diabetes?

infographic-diabetes

The National Diabetes Statistics Report (2014) put out by the Center for Disease Control indicates that 29.1 million people in the United States have diabetes. The number of individuals that are considered prediabetic are even more staggering, 86 million people, or 1 out of 3 adults are considered to be prediabetic. In adults, approximately 95% of all patients diagnosed with diabetes are diagnosed with type 2 diabetes. Fortunately, with proper measures, such as weight loss, increased exercise, and a healthy diet, individuals with prediabetes can delay or even prevent the onset of type 2 diabetes. However, 9 out of 10 individuals considered to be prediabetic do not know that they are at risk.

MRDNA Shotgun Sequencing

2 Million Reads: Metagenome Sequencing

A team of researchers from The Broad Institute partnered with researchers from Seoul National University in order to investigate whether or not the associated imbalance of microbes within the gut microbiota of individuals with type 2 diabetes is present prior to disease onset. Yassour et al. recently published their findings in Genome Medicine, where they were able to perform shotgun metagenomic sequencing on 36 stool samples collected from 20 monozygotic Korean twins. While most metagenomic microbiome studies examine a diseased population and compare the detected microbial diversity with that of a healthy population, Yassour et al, concluded that this study design is unable to determine the relationship between the microbial ecology of the gut and the disease state, be it causal or responsive. Yassour et al. report both positive and negative correlations in biomarkers associated with type 2 diabetes, “functional changes in the gut microbiome at higher sub-clinical values of BMI, FBS, and triglycerides resembled the signatures found in patients with established IBD or T2D, suggesting a shared response to oxidative stress in the gut, induced even at low levels of inflammation or immune activation.” The results from this study and others exploring the host microbiota indicate the presence of a relationship between the gut response and disease state of the host.

 

Microbiome of Breast Milk

newborn-659685_1920Researchers from the University of Western Ontario sought out to determine how the various factors that take place during birth affect the microbiome of human milk e.g. delivery vaginally or caesarean section, gender of the infant, delivery at term or preterm. Urbaniak et al. collected milk from 39 Caucasian Canadian women for DNA isolation and 16s rRNA sequencing. The microbial data for each sample was generated using the Illumina MiSeq platform.

There is a gaining interest in the correlation between the microbiome of infants and the onset of certain diseases and/or health issues such as asthma, types I and II diabetes, and obesity. It is well known that newborns receive a boost in their immune system from breast feeding, but how the microbiome is affected by various stages of gestation is still unknown.

This study employed the use of barcoded primers to sequence the V6 hypervariable region and was able to determine that despite the differing physiological and hormonal factors between the 39 women there was no alteration to the bacterial composition found in the breast milk.

Microbiome of Breast Milk

newborn-659685_1920Researchers from the University of Western Ontario sought out to determine how the various factors that take place during birth affect the microbiome of human milk e.g. delivery vaginally or caesarean section, gender of the infant, delivery at term or preterm. Urbaniak et al. collected milk from 39 Caucasian Canadian women for DNA isolation and 16s rRNA sequencing. The microbial data for each sample was generated using the Illumina MiSeq platform.

There is a gaining interest in the correlation between the microbiome of infants and the onset of certain diseases and/or health issues such as asthma, types I and II diabetes, and obesity. It is well known that newborns receive a boost in their immune system from breast feeding, but how the microbiome is affected by various stages of gestation is still unknown.

 

This study employed the use of barcoded primers to sequence the V6 hypervariable region and was able to determine that despite the differing physiological and hormonal factors between the 39 women there was no alteration to the bacterial composition found in the breast milk.

Microbiome of Breast Milk

newborn-659685_1920Researchers from the University of Western Ontario sought out to determine how the various factors that take place during birth affect the microbiome of human milk e.g. delivery vaginally or caesarean section, gender of the infant, delivery at term or preterm. Urbaniak et al. collected milk from 39 Caucasian Canadian women for DNA isolation and 16s rRNA sequencing. The microbial data for each sample was generated using the Illumina MiSeq platform.

There is a gaining interest in the correlation between the microbiome of infants and the onset of certain diseases and/or health issues such as asthma, types I and II diabetes, and obesity. It is well known that newborns receive a boost in their immune system from breast feeding, but how the microbiome is affected by various stages of gestation is still unknown.

MRDNA_MiSeq

Low Cost Microbiome Sequencing

 

This study employed the use of barcoded primers to sequence the V6 hypervariable region and was able to determine that despite the differing physiological and hormonal factors between the 39 women there was no alteration to the bacterial composition found in the breast milk.

Microbiome of Breast Milk

newborn-659685_1920Researchers from the University of Western Ontario sought out to determine how the various factors that take place during birth affect the microbiome of human milk e.g. delivery vaginally or caesarean section, gender of the infant, delivery at term or preterm. Urbaniak et al. collected milk from 39 Caucasian Canadian women for DNA isolation and 16s rRNA sequencing. The microbial data for each sample was generated using the Illumina MiSeq platform.

There is a gaining interest in the correlation between the microbiome of infants and the onset of certain diseases and/or health issues such as asthma, types I and II diabetes, and obesity. It is well known that newborns receive a boost in their immune system from breast feeding, but how the microbiome is affected by various stages of gestation is still unknown.

 

 

This study employed the use of barcoded primers to sequence the V6 hypervariable region and was able to determine that despite the differing physiological and hormonal factors between the 39 women there was no alteration to the bacterial composition found in the breast milk.

The Whole Picture: Total RNA Sequencing

Total RNA Sequencing    It is well known that scientists have been interested in studying the transcriptome of organisms since the popularization of microarrays. However, a major drawback of transcriptome analysis utilizing microarray technology is the requirement that the target of interest must already be mapped. The introduction of Next Generation Sequencing (NGS) has been able to provide researchers a new tool to study the transcriptome, one that is able to increase sensitivity as well as identify those rare variants that are unknown to the researchers. Laboratories around the world, including MR DNA, are able to utilize NGS instruments such as Illumina’s MiSeq and HiSeq 2500 to aid researchers in grasping a greater picture of the whole transcriptome using Total RNA sequencing technology. By sequencing the whole transcriptome, the highly experienced team at MR DNA is able detect differences in gene expression between samples as well as provide de novo RNA-seq assembly. For your next transcriptome study, contact the scientists at MR DNA , and see how you can to take advantage of their affordable cost and rapid turnaround time.

 

Next Generation Sequencing | MR DNA

MR DNA can perform whole-genome or de novo sequencing, resequencing … in one flow cell lane, reducing the cost of this service for small genomic libraries. …transcriptome analysis using mRNA sequencing on the HiSeq platform.

Price List | MR DNA

TruSeq RNA/small RNA sample library prep, per sample … Illumina HiSeq 2000/2500sequencing (high-output mode) 7 lanes run with samples, 1 phiX lane

 

Next Generation Sequencing Facility – MR DNA

The DNA Sequencing Facility offers all-inclusive next generation sequencing, DNA extraction and SNP genotyping services on a … We work with our customers to prepare DNA, RNA, ChIP, GBS, metagenomic, exome, and other sequencing … Run Charges – HiSeq 2000/2500 High Throughput  …

RNA-Seq (Quantification) | MR DNA

Powered by our unique bioinformatics capabilities, MR DNA RNASeq services deliver …RNASeq based on Hiseq: high-throughput and a wide  …

 

Sequencing – Genome Technology | MR DNA

https://mrdnalab.com

… instructions. Below you will find more information about our sequencing services: library preparation, sequencing, and analyses. … mRNASeq · ChIP-Seq …Sequencing. GTAC operates four Illumina HiSeq 2500 sequencing instruments.

 

 

MR DNA: HiSeq 2500 & MiSeq – Next Generation Sequencing

The MR DNA Facility houses an Illumina HiSeq 2500 and an … such as ChIP-Seq, transcript counts, SNP detection, and small RNA analysis, the … the mate-pair protocol and should contact the facility regarding this service.

 

Epigenetics via ChIP-Seq (Chromatin Immunoprecipitation Sequencing)

As technology progresses, so does the curiosity of scientific minds around the globe. As more and more scientists shift from traditional DNA sequencing methods to massively parallel DNA sequencing, the new discoveries are increasing at an exponential rate. Such discoveries come with the popularization of chromatin immunoprecipitation sequencing or ChIP-Seq. ChIP sequencing is able to take scientists who were once excited to decipher the genomic code and stimulate new discoveries by determining how those genes are expressed. Laboratories, such as MR DNA, are assisting researchers from universities around the world to pinpoint how DNA and/or RNA are interacting with certain proteins by employing the ChIP-Seq protocol on a routine basis. Contact the highly experienced team at MR DNA in order to take advantage of their affordable cost and rapid turnaround time for your next epigenetic study.

 

Our services – MR DNA Laboratory

MR DNA

Illumina HiSeq 2500/200, MiSeq – The HiSeq 2500/2000 sequencing systems offer the … Metagenomics and amplicon sequencing; ChIPSeq  …

 

Functional Genomics

MR DNA

MR DNA offers library prep, sequencing, and basic data analysis services for …Simple ChIPSeq … hiSeq2500, …., sequence the samples

 

High-Throughput Sequencing Center

MR DNA

We provide services for high-throughput next-generation sequencing using the … (ChIPSEQ), RNA discovery and Multiplex sequencing … Pricing forHiSeq 2500 sequencing is based on ……..sequencing run,  …

 

MR DNA Research Laboratory Services

Services. Transcriptomics. mRNA-Seq: Stranded and non-stranded, high levels of multiplexing … ChIPSeq. Transcription factor analysis; Histone modifications

Genome Sequencing Service

Genome sequencing is described as the process of determining the order of the nucleotide bases within a certain length strand of DNA. You can sequence a short piece, the whole genome, or parts of the genome (exomes – parts of the genome that contain genes).

The knowledgeable team at MR DNA Lab (also known as Molecular Research) have been helping hundreds of researchers from around the world get the next-generation sequencing (NGS) services they need. We are one of the most reputable NGS labs providing high-quality data, and have fast turn-around without compromising quality. Our genome sequencing services are a cost-effective solution, and we try to beat anyone’s quoted pricing.

MR DNA scientists have more than 20 years of continuous experience (not combined) developing new and novel molecular methods, systematics, microsatellite screening, MHC assays, viral assays, protozoan assays and much more. Our team’s goal is to take advantage of each new technology as it arrives and leverage it to develop unique, improved and more cost effective molecular methods and tools.

Our highly-trained scientists are ready to help you with your research goals. We always try and understand the focus of your research to best provide you with the analysis you are looking for. Your results are always confidential.

At MR DNA, we offer a wide variety of genome sequencing services. Below is a general list of the different types of services we provide:

Metagenomics

ALLinONE

Whole Genome Resequencing

Exome Sequencing

Target Region Sequencing

de novo Sequencing

Whole Genome Mapping

Genotyping

Sanger Sequencing

Oligo Synthesis

Single-cell DNA Sequencing

Epigenomics

Bisulfite Sequencing

RRBS

MeDIP-Seq

Chip-Seq

Transcriptomics

RNA-Seq (Transcriptome)

RNA-Seq (Quantification)

Whole Transcriptome Sequencing

Single-cell RNA sequencing

Here is a small sample of the organisms in our database:

Acaulosporaceae sp.

Acaulosporaceae sp. s1

Acaulosporaceae sp. s142

Acaulosporaceae sp. s175

Acaulosporaceae sp. s254

Acephala applanata

Acephala macrosclerotiorum

Acephala sp.

Acephala sp. 1

Acephala sp. 2

Acephala sp. 3

Acephala sp. 4

Acephala sp. 4 mv-2011

Acephala sp. 5

Acephala sp. 6

Acephala sp. 7 crg-2011

Acephala sp. 7 mv-2011

Acephala sp. 8 mv-2011

Acephala sp. 9 mv-2011

Acephala sp. asr-174

Acephala sp. asr-197

Acephala sp. w2-5

Acephala sp. zk96/08

Acerentomon franzi

Acervus epispartius

Acervus flavidus

Acervus sp.

Acervus sp. hmas78146

Acervus sp. hmas78150

Acestrocephalus sardina

Acestrorhynchus abbreviatus

Acestrorhynchus falcatus

Acestrorhynchus lacustris

Acestrorhynchus microlepis

Acestrorhynchus pantaneiro

Acestrorhynchus sp.

Acestrorhynchus spp.

Acetabularia acetabulum

Acetabularia crenulata

Acetabularia dentata

Acetabularia major

Acetabularia peniculus

Acetabularia schenkii

Acetanaerobacterium elongatum

Acetanaerobacterium spp.

Acetitomaculum spp.

Acetivibrio cellulolyticus

#DNA on Twitter

Tweet-tweet! Nowadays, Twitter is not merely a social-network. It has become a must-read source of real-time industry news and information with regular updates, news and discussions from the leading minds of today. The advent of Twitter has allowed for folks to have real-time conversations with thought leaders across the field. An upcoming researcher in genomics can now engage with genomics gurus at the swipe off a finger. Online communities such as blogs have been around for a bit, but now the micro-communities like Twitter allow for real-time discussions. Get the latest insights from across the globe as they are happening. Over 35 percent of Americans per capita are active on Twitter, a close second to the UK which has almost 40 percent.

The infographic below displays the top nations actively using Twitter per capita:

Follow @MRDNA_Lab on Twitter to get the latest content surrounding applied DNA sciences, genomics news, next-generation sequencing and more.

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Twitter is a real-time information network that connects people to the latest stories, ideas, opinions and news that they find interesting. At the heart of Twitter are small bursts of information called Tweets. Each Tweet is 140 characters long. Tweets include photos, videos and conversations that enable followers to get the whole story at a glance, and all in one place.

Twitter connects organizations to their audiences in real time—and organizations can use Twitter to quickly share information with people interested in their products and services, gather real-time market intelligence and feedback, and build relationships with customers, partners and influencers. This is done by ‘following’ members of your target market or by communicating with twitter users who are already interested and ‘following’ you. Tweets can include live links in the form of hash tags (#) and user tags or handles (@). Twitter is all about engaging with an audience in real time, with short sharp alerts and posts, providing links to further content if necessary.

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