Skip to Main Content

The University of Tennessee

Center for Environmental Biotechnology

Frequently Used Tools:



High Throughput DNA Sequencing


High Throughput DNA Sequencing at UT

The Center for Environmental Biotechnology (CEB) is providing high-throughput DNA sequencing services to all interested on-campus and off-campus researchers.  DNA sequencing will be performed using the illumina MiSeq located in the Science and Engineering Research Facility (SERF). Sequencing will be done using the Illumina MiSeq platform, which can yield up to 15 Gb of DNA sequence in a single run.  Applications include genome sequencing, 16S metagenomics, RNA sequencing, as well as custom amplicon sequencing. A project consultation with Dan Williams and/or Dominique Joyner is required prior to use to explain our services and expectations. 

 

DNA Samples and Data Output
All clients must provide high quality DNA (3 – 5 µg) for sequencing at a minimum concentration >40 ng/µl as measured by a fluorometer.  CEB staff will further prepare the DNA for sequencing.   Currently, using standard protocols, our DNA preparation and sequencing run takes a minimum of 5 days.  At current computing capacity, processing data files requires at least 20 man hours. Data analysis needs can be discussed at initial project consultation. 

A DNA submission form can be downloaded from:  MiSeq Submission Form

 

Pricing
It is strongly recommended that the cost of sequencing be included in your research proposals.  CEB staff can work with you on defining your needs.    The current pricing structure for a standard MiSeq sequencing project for a UT affiliated is as follows:

Rates for Illumina Library Preparation

Amplicon library preparation - $77.

Library Type

TruSeq Cost

Nextera Cost

DNA (Paired end only)

N/A

$384

RNA

$412

N/A

Rates for MiSeq Sequencing

MiSeq Sequencing Kit

Approximate Sequence Size

Cost

2 X 150 bp (V2)

2 - 5 Gb

$1,991

2 X 250 bp (V2)

5 - 8 Gb

$2,216

2 X 75 bp (V3)

1 - 3 Gb

$1,867

2 x 300 bp (V3)

8 - 12 Gb

$2,890

The pricing structure may be modified in the future as new methods and applications become available. Pricing for non-UT affiliated users available upon request. 

 

Information
For further information on applications and pricing, please contact Dan Williams at 974-8072. 

Sequencing Calendar

Please contact Dan Williams (865-974-8072) or Scott Moser (865-974-0446) to check available dates.

 

 

Recent Publications

Chauhan A, Layton AC, Vishnivetskaya TA, Williams D, Pfiffner SM, Rekepalli B, Stackhouse B, Lau MCY, Phelps TJ, Mykytczuk N, Ronholm J, Whyte L, Onstott TC, Sayler GS. 2014. Metagenomes from thawing low-soil-organic-carbon mineral cryosols and permafrost of the Canadian high Arctic. Genome Announcements 2. doi: 10.1128/genomeA.01217-14.

Chauhan A, Smartt A, Wang J, Utturkar S, Frank A, Meng B, Liu J, Williams D, Xu T, Eldridge M, Arreaza A, Rogers A, Gonzalez HC, Layton AC, Mazarei M, Baxter HL, DeBruyn JM, Stewart Jr CN, Brown SD, Hauser LJ, Sayler GS. Integrated metagenomics and metatranscriptomics analyses of transgenic switchgrass rhizosphere. Genome Announcements 2. doi: 10.1128/genomeA.00777-14.

Harris AP, SM Techtmann, SC Stelling, SM Utturkar, NK Alshibli, SD Brown and TC Hazen. 2014. Draft Genome Sequence of Pseudoalteromonas sp. strain ND6B, an oil degrading isolate from Eastern Mediterranean Sea water collected at a depth of 1210 m. Genome Announcement 2:e01212-14.

Layton AC, Chauhan A, Williams DE, Mailloux B, Knappett PSK, Ferguson AS, McKay LD, Alam MJ, Matin Ahmed K, van Geen A, Sayler GS. 2014. Metagenomes of microbial communities in arsenic- and pathogen-contaminated well and surface water from Bangladesh. Genome Announcements 2. doi: 10.1128/genomeA.01170-14.

Mahmoudi N, MS Robeson, HF Castro, JL Fortney, SM Techtmann, DC Joyner, CJ Paradis, SM Pfiffner, TC Hazen. (2014) Microbial community composition and diversity in Caspian Sea sediments. FEMS Microbiology Ecology, 91(1): 1-11

Mason OU, Scott NM, Gonzalez A, Robbins-Pianka A, Balum J, Kimbrel J, Bouskill NJ, Prestat E, Borglin S, Joyner DC, Fortney JL, Jurelevicius D, Stringfellow WT, Alvarez-Cohen L, Hazen TC, Knight R, Gilbert JA, Jansson JK. 2014. Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill. ISME Journal 8:1464-1475.

Stelling SC, Techtmann SM, Utturkar SM, Alshibli NK, Brown SD, Hazen TC. 2014. Draft genome sequence of Thalassotalea sp. strain ND16A isolated from Eastern Mediterranean sea water collected from a depth of 1,055 meters. Genome Announcements 2. doi: 10.1128/genomeA.01231-14.

Techtmann SM, Fortney JL, Ayers KA, Linley TD, Pfiffner SM, Hazen TC. The Unique Chemistry of Eastern Mediterranean Water Masses Selects for Distinct Microbial Communities by Depth. PLoS ONE 10(3): e0120605. doi:10.1371/journal.pone.0120605

Vishnivetskaya T, Chauhan A, Layton A, Pfiffner S, Huntemann M, Copeland A, Chen A, Kyrpides NC, Markowitz V, Palaniappan K, Ivanova NN, Mikhailova N, Ovchinnikova G, Andersen EW, Pati S, Stamatis D, Reddy TBK, Shapiro N, Nordberg HP, Cantor MN, Hua XS, Woyke T. 2014. Draft genome sequences of ten strains of the genus Exiguobacterium. Genome Announcements 2:e01058-01014.

Woo HL, Ballor NR, Hazen TC, Fortney JL, Simmons B, Davenport KW, Goodwin L, Ivanova N, Kyrpides NC, Mavromatis K, Woyke T, Jansson J, Kimbrel J, DeAngelis KM. 2014. Complete genome sequence of the lignin-degrading bacterium Klebsiella sp. strain BRL6-2. Standards in Genomic Sciences 9:19-19.

Woo HL, Utturkar S, Klingeman D, Simmons BA, DeAngelis KM, Brown SD, Hazen TC. 2014. Draft genome sequence of the lignin-degrading Burkholderia sp. strain LIG30, isolated from wet tropical forest soil. Genome Announcements 2:e00637-14.