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The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus).
BMC Genomics. 2012 Jul 16; 13:312.BG

Abstract

BACKGROUND

Snake venoms have significant impacts on human populations through the morbidity and mortality associated with snakebites and as sources of drugs, drug leads, and physiological research tools. Genes expressed by venom-gland tissue, including those encoding toxic proteins, have therefore been sequenced but only with relatively sparse coverage resulting from the low-throughput sequencing approaches available. High-throughput approaches based on 454 pyrosequencing have recently been applied to the study of snake venoms to give the most complete characterizations to date of the genes expressed in active venom glands, but such approaches are costly and still provide a far-from-complete characterization of the genes expressed during venom production.

RESULTS

We describe the de novo assembly and analysis of the venom-gland transcriptome of an eastern diamondback rattlesnake (Crotalus adamanteus) based on 95,643,958 pairs of quality-filtered, 100-base-pair Illumina reads. We identified 123 unique, full-length toxin-coding sequences, which cluster into 78 groups with less than 1% nucleotide divergence, and 2,879 unique, full-length nontoxin coding sequences. The toxin sequences accounted for 35.4% of the total reads, and the nontoxin sequences for an additional 27.5%. The most highly expressed toxin was a small myotoxin related to crotamine, which accounted for 5.9% of the total reads. Snake-venom metalloproteinases accounted for the highest percentage of reads mapping to a toxin class (24.4%), followed by C-type lectins (22.2%) and serine proteinases (20.0%). The most diverse toxin classes were the C-type lectins (21 clusters), the snake-venom metalloproteinases (16 clusters), and the serine proteinases (14 clusters). The high-abundance nontoxin transcripts were predominantly those involved in protein folding and translation, consistent with the protein-secretory function of the tissue.

CONCLUSIONS

We have provided the most complete characterization of the genes expressed in an active snake venom gland to date, producing insights into snakebite pathology and guidance for snakebite treatment for the largest rattlesnake species and arguably the most dangerous snake native to the United States of America, C. adamanteus. We have more than doubled the number of sequenced toxins for this species and created extensive genomic resources for snakes based entirely on de novo assembly of Illumina sequence data.

Authors+Show Affiliations

Department of Biological Science, Florida State University, Tallahassee, FL 32306-4295, USA. drokyta@bio.fsu.eduNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

23025625

Citation

Rokyta, Darin R., et al. "The Venom-gland Transcriptome of the Eastern Diamondback Rattlesnake (Crotalus Adamanteus)." BMC Genomics, vol. 13, 2012, p. 312.
Rokyta DR, Lemmon AR, Margres MJ, et al. The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus). BMC Genomics. 2012;13:312.
Rokyta, D. R., Lemmon, A. R., Margres, M. J., & Aronow, K. (2012). The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus). BMC Genomics, 13, 312. https://doi.org/10.1186/1471-2164-13-312
Rokyta DR, et al. The Venom-gland Transcriptome of the Eastern Diamondback Rattlesnake (Crotalus Adamanteus). BMC Genomics. 2012 Jul 16;13:312. PubMed PMID: 23025625.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus). AU - Rokyta,Darin R, AU - Lemmon,Alan R, AU - Margres,Mark J, AU - Aronow,Karalyn, Y1 - 2012/07/16/ PY - 2012/03/14/received PY - 2012/07/02/accepted PY - 2012/10/3/entrez PY - 2012/10/3/pubmed PY - 2013/2/7/medline SP - 312 EP - 312 JF - BMC genomics JO - BMC Genomics VL - 13 N2 - BACKGROUND: Snake venoms have significant impacts on human populations through the morbidity and mortality associated with snakebites and as sources of drugs, drug leads, and physiological research tools. Genes expressed by venom-gland tissue, including those encoding toxic proteins, have therefore been sequenced but only with relatively sparse coverage resulting from the low-throughput sequencing approaches available. High-throughput approaches based on 454 pyrosequencing have recently been applied to the study of snake venoms to give the most complete characterizations to date of the genes expressed in active venom glands, but such approaches are costly and still provide a far-from-complete characterization of the genes expressed during venom production. RESULTS: We describe the de novo assembly and analysis of the venom-gland transcriptome of an eastern diamondback rattlesnake (Crotalus adamanteus) based on 95,643,958 pairs of quality-filtered, 100-base-pair Illumina reads. We identified 123 unique, full-length toxin-coding sequences, which cluster into 78 groups with less than 1% nucleotide divergence, and 2,879 unique, full-length nontoxin coding sequences. The toxin sequences accounted for 35.4% of the total reads, and the nontoxin sequences for an additional 27.5%. The most highly expressed toxin was a small myotoxin related to crotamine, which accounted for 5.9% of the total reads. Snake-venom metalloproteinases accounted for the highest percentage of reads mapping to a toxin class (24.4%), followed by C-type lectins (22.2%) and serine proteinases (20.0%). The most diverse toxin classes were the C-type lectins (21 clusters), the snake-venom metalloproteinases (16 clusters), and the serine proteinases (14 clusters). The high-abundance nontoxin transcripts were predominantly those involved in protein folding and translation, consistent with the protein-secretory function of the tissue. CONCLUSIONS: We have provided the most complete characterization of the genes expressed in an active snake venom gland to date, producing insights into snakebite pathology and guidance for snakebite treatment for the largest rattlesnake species and arguably the most dangerous snake native to the United States of America, C. adamanteus. We have more than doubled the number of sequenced toxins for this species and created extensive genomic resources for snakes based entirely on de novo assembly of Illumina sequence data. SN - 1471-2164 UR - https://www.unboundmedicine.com/medline/citation/23025625/The_venom_gland_transcriptome_of_the_eastern_diamondback_rattlesnake__Crotalus_adamanteus__ L2 - https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-13-312 DB - PRIME DP - Unbound Medicine ER -