NextGen DNA Sequencing

Overview

CORE OVERVIEW

Welcome to the UF ICBR NextGen DNA Sequencing core facility. The ICBR-NGS core provides researchers with quality, massively parallel, high-throughput sequencing data using the most current instrumentation, at a reasonable cost. We currently support the most popular platforms: Illumina NovaSeq6000 and MiSeq and the Pacific Biosciences SEQUEL IIe system. Together, these instruments cover a broad range of powerful applications. Our free consultation services aim to help researchers navigate through the complex matrix of experimental options represented by the available sequencing technologies. Some of these important considerations include: read length, error rate, predominant type of error, data output/run, speed, cost, etc. The ever-broadening range of applications include (but are not limited to) de novo sequencing of whole genomes, targeted sequencing, transcriptome sequencing (RNA-Seq), chromatin immunoprecipitation (ChIP) sequencing, methylation analysis and metagenomics.

Our sample prep and library construction services are offered through both the NGS and the GeneExpression/Genotyping Cores. Please contact us if the service of your interest is not listed. We strive to support most common applications.

SERVICES OVERVIEW

Don’t see the service you are looking for? Visit UF | ICBR Gene Expression & Genotyping for more options.

Sequencing Services

Library Construction Services

General Services

NovaSeq 6000 Sequencing

Request services for: Sequencing formats (S4 2×150, S4 2×100, S2 2×150, S2 2×100, S2 2×50, S1 2×150, S1 2×100, S1 2×50, SP 2×250, SP 2×150, SP 2×50)

MiSeq Illumina Sequencing

Request services for: Sequencing formats (2x300v3, 2x250v2, 2x150v2, 2x75v3, 1x300v2, 1x150v3, 1x50v2)

PacBio SEQUEL IIe Sequencing

Sequencing formats (10 to 30 hour movies). LR SMRT cells
Current chemistry (early 2021): SMRT Link 10.0
Reads per SMRT cell run: 4-5 million reads

Illumina Standard DNA-Seq
Illumina PCR-free DNA-Seq
Illumina Whole Genome Bisulfite-converted WGBS)
Illumina Reduced Representation Bisulfite converted (RRBS)
Illumina Ultra-low input DNA-Seq
Illumina ATAC-seq
Illumina COVID-Seq
10X Genomics ATAC-Seq
PacBio Long-insert DNA-Seq for de novo assemblies
PacBio Barcoded bacterial DNA for multiplex sequencing
PacBio Barcoded amplicon-Seq (up to 10 Kb)
PacBio IsoSeq for transcriptome/isoform analysis
PacBio Full-length 16S metagenomics

Project Consultation
Bioanalyzer, TapeStation
Qubit Assays
Assisted use of Covaris for sample fragmentation
Fragment Selection (ELF-based)
Sample/library clean-up
Load only sequencing instrument runs
Library pooling and pool quantitation

Please note that our library construction and sequencing services do not include data processing. Visit ICBR Bioinformatics to request Data Analysis services.

CORE NEWS

UF/IFAS study: Forget the queen, kill the brood to eliminate subterranean termite colonies

By Lourdes Mederos UF/IFAS DAVIE, Fla – Taking an extended look inside a subterranean termite colony is a rare and almost non-existent opportunity unless you raise one. But scientists like Thomas Chouvenc rear colonies from a king and queen, allowing them to produce thousands of eggs that grow to full maturity. In doing so, Chouvenc sheds a world of light on the species, the colony’s social behaviors, survival tactics and weaknesses. Thomas Chouvenc of UF IFAS Fort Lauderdale Research and Educ...

Hippos’ Constant Defecating Turns African Pools into Communal Guts

Lauren Barnett UF CLAS Hippopotamuses can eat nearly 100 pounds of food daily — and, as a result, they fill the pools where they spend much of their lives with huge amounts of poop. All that excrement, new research has found, turns the pools into extensions of the hippos’ guts, as bacteria and other microbes expelled into the water survive and are shared among the congregating animals. This “meta-gut,” as the researchers termed it, could have major impacts on the hippos’ ecosystems. The findings...

Hot Tumors: The Turbo Engine That Immunotherapy Needed

by Maja Aganovic UF Innovate Immunotherapy is a hot topic of conversation when it comes to cancer treatment. Pediatric oncologist Dr. Elias Sayour and his team have found a way to make a hot tumor, their way to make immunotherapy, an alternative to chemotherapy, more effective. “I spend the bulk of my time doing research, 80 percent of my time trying to develop new therapies for childhood cancer,” said Sayour, an associate professor of neurosurgery and pediatrics and principal investigator of th...

UF Study: Consumers like Shelved Tomato Juice More than a Refrigerated Product

by Brad Buck UF/IFAS Tempted by the tangy taste of tomato juice? Consumers may prefer a product sold from grocery store shelves over a minimally pasteurized refrigerated product, but only by a small margin, new University of Florida research shows. Researchers at the UF Institute of Food and Agricultural Sciences made four types of tomato juice, combining six UF/IFAS tomato varieties. In this study, scientists wanted to know how heat treatments impact flavor compounds in tomato juices. Generally...

Even at the Cellular Level, Ancestry Matters

by Emily Cardinali UF News Diseases impact different populations with varying prevalence, which is reflected in health disparities that are seen for illnesses like lupus, cancer, and cardiovascular disease. To create effective medical treatments, researchers need representative population samples. Even though disease impacts everybody, medical research samples are often not representative of diverse populations. In a new article published by Nature, UF professors Erika Moore, Josephine Allen and...

Two Common Compounds Show Effectiveness Against COVID-19 Virus in Early Testing

by Doug Bennett UF Health A pair of over-the-counter compounds has been found in preliminary tests to inhibit the virus that causes COVID-19, University of Florida Health researchers have found. The combination includes diphenhydramine, an antihistamine used for allergy symptoms. When paired with lactoferrin, a protein found in cow and human milk, the compounds were found to hinder the SARS-CoV-2 virus during tests in monkey cells and human lung cells. The findings by David A. Ostrov, Ph.D., an ...

Stomata Molecular Switches and the Future of Agriculture with Dr. Sixue Chen

By Rosie Kereston UF Genetics Institute Dr. Sixue Chen, professor in the Department of Biology and faculty director of the UF | ICBR Proteomics and Mass Spectrometry core, has dedicated his research to improving the future of agriculture and global food security. “I have always wanted to do something useful for other people. That keeps me going. Every day, I ask myself how I can make a positive difference in the lives of as many people as possible. That’s why I love my job- it is a perfect...

Underbite regained: Species feared extinct is the only frog with true teeth on its lower jaw

By Jerald Pinson Florida Museum In a new study, biologists laid to rest a century-old debate by confirming that a single species of frog, out of the more than 7,000 living today, has true teeth on its lower jaw. The culprit, a large marsupial frog named Gastrotheca guentheri, has puzzled scientists since its discovery in 1882 for possessing what appeared to be a complete set of jagged, daggerlike teeth on the top and bottom of its mouth. Scientists have since waffled over the exact nature of the...

CORE INSTRUMENTS