Manduca sexta Official Gene Set v2.2

Manduca sexta, known as the tobacco hornworm or Carolina sphinx moth, is a lepidopteran insect that is used extensively as a model system for research in insect biochemistry, physiology, neurobiology, development, and immunity. One important benefit of this species as an experimental model is its extremely large size, reaching more than 10 g in the larval stage. M. sexta larvae feed on solanaceous plants and thus must tolerate a substantial challenge from plant allelochemicals, including nicotine.

This dataset presents the Manduca sexta Official Gene Set (OGS) v2.2. It is derived from Official Gene Sets OGSv2.0 and OGSv2.1. OGSv2.0 was modified to meet NCBI-GenBank quality review, resulting in OGSv2.1. This was deposited in NCBI GenBank (accession number AIXA00000000). OGS2.1 was lifted over to assembly JHU_Msex_v1.0/GCF_014839805.1 using the LiftOff (https://doi.org/10.1093/bioinformatics/btaa1016) and Genometools (http://genometools.org/) software, resulting in OGSv2.2. OGSv2.2 has quality issues due to the liftover - the i5k Workspace@NAL recommends NCBI Annotation Release 102 for general analysis, instead.

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Manduca sexta Official Gene Set v2.2Data
The attached tar.gz archive (OGSv2.2.tar.gz) contains the following files:...
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Field	Value
Tags	genome assembly sequence analysis genome annotation Manduca sexta
Modified	2022-09-23
Release Date	2021-06-03
Identifier	6c3ddfea-4e46-4c48-9533-f2f88255d941
Spatial / Geographical Coverage Area	POLYGON ((-125.88867142797 -60.239811169999, -125.88867142797 43.06888777417, -26.71875 43.06888777417, -26.71875 -60.239811169999))
Publisher	Ag Data Commons
Temporal Coverage	September 1, 2018 to September 30, 2018
License	Creative Commons Attribution Share-Alike
Contact Name	Kanost, Michael
Contact Email	kanost@ksu.edu
Public Access Level	Public

Extended Metadata:

Field	Value
Authors	Kanost, Michael R. (ORCID) Blissard, Gary (ORCID) Richards, Stephen (ORCID) Brown, Susan (ORCID) Papanicolaou, Alexie (ORCID) Herndon, Nicolae (Scopus Author ID) Jiang, Haobo (Scopus Author ID)
Peer Reviewed	No
Intended Use	This genome sequence, annotation, and analysis provide an important new resource from a well-studied model insect species and will facilitate further biochemical and mechanistic experimental studies of many biological systems in insects.
Equipment or Software Used	MAKER Apollo PASA2 JAMg EvidenceModeler Liftoff Genometools GFF3toolkit
Funding Sources	National Institutes of Health GM041247 Defense Advanced Research Projects Agency
Primary Article	Kanost, M. R., Arrese, E. L., Cao, X., Chen, Y.-R., Chellapilla, S., Goldsmith, M. R., Grosse-Wilde, E., Heckel, D. G., Herndon, N., Jiang, H., Papanicolaou, A., Qu, J., Soulages, J. L., Vogel, H., Walters, J., Waterhouse, R. M., Ahn, S.-J., Almeida, F. C., An, C., Aqrawi, P., Bretschneider, A., Bryant, W. B., Bucks, S., Chao, H., Chevignon, G., Christen, J. M., Clarke, D. F., Dittmer, N. T., Ferguson, L. C., Garavelou, S., Gordon, K. H., Gunaratna, R. T., Han, Y., Hauser, F., He, Y., Heidel-Fischer, H., Hirsh, A., Hu, Y., Jiang, H., Kalra, D., Klinner, C., König, C., Kovar, C., Kroll, A. R., Kuwar, S. S., Lee, S. L., Lehman, R., Li, K., Li, Z., Liang, H., Lovelace, S., Lu, Z., Mansfield, J. H., McCulloch, K. J., Mathew, T., Morton, B., Muzny, D. M., Neunemann, D., Ongeri, F., Pauchet, Y., Pu, L.-L., Pyrousis, I., Rao, X.-J., Redding, A., Roesel, C., Sanchez-Gracia, A., Schaack, S., Shukla, A., Tetreau, G., Wang, Y., Xiong, G.-H., Traut, W., Walsh, T. K., Worley, K. C., Wu, D., Wu, W., Wu, Y.-Q., Zhang, X., Zou, Z., Zucker, H., Briscoe, A. D., Burmester, T., Clem, R. J., Feyereisen, R., Grimmelikhuijzen, C. J., Hamodrakas, S. J., Hansson, B. S., Huguet, E., Jermiin, L. S., Lan, Q., Lehman, H. K., Lorenzen, M., Merzendorfer, H., Michalopoulos, I., Morton, D. B., Muthukrishnan, S., Oakeshott, J. G., Palmer, W., Park, Y., Passarelli, A. L., Rozas, J., Schwartz, L. M., Smith, W., Southgate, A., Vilcinskas, A., Vogt, R., Wang, P., Werren, J., Yu, X.-Q., Zhou, J.-J., Brown, S. J., Scherer, S. E., Richards, S., & Blissard, G. W. (2016). Multifaceted biological insights from a draft genome sequence of the tobacco hornworm moth, Manduca sexta. Insect Biochemistry and Molecular Biology, 76, 118-147. https://doi.org/10.1016/j.ibmb.2016.07.005 AgID: 5496819
Related Articles	Cao, X., & Jiang, H. (2015). Integrated modeling of protein-coding genes in the Manduca sexta genome using RNA-Seq data from the biochemical model insect. Insect Biochemistry and Molecular Biology, 62, 2-10. https://doi.org/10.1016/j.ibmb.2015.01.007 Zhang, X., Zheng, Y., Cao, X., Ren, R., Yu, X.-Q., & Jiang, H. (2015). Identification and profiling of Manduca sexta microRNAs and their possible roles in regulating specific transcripts in fat body, hemocytes, and midgut. Insect Biochemistry and Molecular Biology, 62, 11-22. https://doi.org/10.1016/j.ibmb.2014.08.006 He, Y., Cao, X., Li, K., Hu, Y., Chen, Y.- ru, Blissard, G., Kanost, M. R., & Jiang, H. (2015). A genome-wide analysis of antimicrobial effector genes and their transcription patterns in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 23-37. https://doi.org/10.1016/j.ibmb.2015.01.015 Zhang, X., He, Y., Cao, X., Gunaratna, R. T., Chen, Y.- ru, Blissard, G., Kanost, M. R., & Jiang, H. (2015). Phylogenetic analysis and expression profiling of the pattern recognition receptors: Insights into molecular recognition of invading pathogens in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 38-50. https://doi.org/10.1016/j.ibmb.2015.02.001 Cao, X., He, Y., Hu, Y., Zhang, X., Wang, Y., Zou, Z., Chen, Y., Blissard, G. W., Kanost, M. R., & Jiang, H. (2015). Sequence conservation, phylogenetic relationships, and expression profiles of nondigestive serine proteases and serine protease homologs in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 51-63. https://doi.org/10.1016/j.ibmb.2014.10.006 Cao, X., He, Y., Hu, Y., Wang, Y., Chen, Y.-R., Bryant, B., Clem, R. J., Schwartz, L. M., Blissard, G., & Jiang, H. (2015). The immune signaling pathways of Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 64-74. https://doi.org/10.1016/j.ibmb.2015.03.006 Rao, X.-J., Cao, X., He, Y., Hu, Y., Zhang, X., Chen, Y.-R., Blissard, G., Kanost, M. R., Yu, X.-Q., & Jiang, H. (2015). Structural features, evolutionary relationships, and transcriptional regulation of C-type lectin-domain proteins in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 75-85. https://doi.org/10.1016/j.ibmb.2014.12.006 Chevignon, G., Cambier, S., Da Silva, C., Poulain, J., Drezen, J.-M., Huguet, E., & Moreau, S. J. (2015). Transcriptomic response of Manduca sexta immune tissues to parasitization by the bracovirus associated wasp Cotesia congregata. Insect Biochemistry and Molecular Biology, 62, 86-99. https://doi.org/10.1016/j.ibmb.2014.12.008 Dittmer, N. T., Tetreau, G., Cao, X., Jiang, H., Wang, P., & Kanost, M. R. (2015). Annotation and expression analysis of cuticular proteins from the tobacco hornworm, Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 100-113. https://doi.org/10.1016/j.ibmb.2014.12.010 Tetreau, G., Cao, X., Chen, Y.-R., Muthukrishnan, S., Jiang, H., Blissard, G. W., Kanost, M. R., & Wang, P. (2015). Overview of chitin metabolism enzymes in Manduca sexta: Identification, domain organization, phylogenetic analysis and gene expression. Insect Biochemistry and Molecular Biology, 62, 114-126. https://doi.org/10.1016/j.ibmb.2015.01.006 Tetreau, G., Dittmer, N. T., Cao, X., Agrawal, S., Chen, Y.-R., Muthukrishnan, S., Haobo, J., Blissard, G. W., Kanost, M. R., & Wang, P. (2015). Analysis of chitin-binding proteins from Manduca sexta provides new insights into evolution of peritrophin A-type chitin-binding domains in insects. Insect Biochemistry and Molecular Biology, 62, 127-141. https://doi.org/10.1016/j.ibmb.2014.12.002 Vogt, R. G., Große-Wilde, E., & Zhou, J.-J. (2015). The Lepidoptera Odorant Binding Protein gene family: Gene gain and loss within the GOBP/PBP complex of moths and butterflies. Insect Biochemistry and Molecular Biology, 62, 142-153. https://doi.org/10.1016/j.ibmb.2015.03.003 MacWilliam, D., Arensburger, P., Higa, J., Cui, X., & Adams, M. E. (2015). Behavioral and genomic characterization of molt-sleep in the tobacco hornworm, Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 154-167. https://doi.org/10.1016/j.ibmb.2015.01.012 Smith, G., & Briscoe, A. D. (2015). Molecular evolution and expression of the CRAL_TRIO protein family in insects. Insect Biochemistry and Molecular Biology, 62, 168-173. https://doi.org/10.1016/j.ibmb.2015.02.003 Ayme-Southgate, A., Feldman, S., & Fulmer, D. (2015). Myofilament proteins in the synchronous flight muscles of Manduca sexta show both similarities and differences to Drosophila melanogaster. Insect Biochemistry and Molecular Biology, 62, 174-182. https://doi.org/10.1016/j.ibmb.2015.02.008 Whittington, E., Zhao, Q., Borziak, K., Walters, J. R., & Dorus, S. (2015). Characterisation of the Manduca sexta sperm proteome: Genetic novelty underlying sperm composition in Lepidoptera. Insect Biochemistry and Molecular Biology, 62, 183-193. https://doi.org/10.1016/j.ibmb.2015.02.011 Soulages, J. L., Wu, Z., Firdaus, S. J., Mahalingam, R., & Arrese, E. L. (2015). Monoacylglycerol and diacylglycerol acyltransferases and the synthesis of neutral glycerides in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 194-210. https://doi.org/10.1016/j.ibmb.2014.09.007 Li, Z., & Blissard, G. (2015). The vacuolar protein sorting genes in insects: A comparative genome view. Insect Biochemistry and Molecular Biology, 62, 211-225. https://doi.org/10.1016/j.ibmb.2014.11.007 Burmester, T. (2015). Expression and evolution of hexamerins from the tobacco hornworm, Manduca sexta , and other Lepidoptera. Insect Biochemistry and Molecular Biology, 62, 226-234. https://doi.org/10.1016/j.ibmb.2014.11.009
Dataset DOI (digital object identifier)	10.15482/USDA.ADC/1522540
Product Type	Dataset
Related Content	Genome assembly JHU_Msex_v1.0 (GCF_014839805.1_) I5k Workspace@NAL Manduca sexta page IsVersonOf: Manduca sexta Official Gene Set v2.0

Field	Value
OSTI Identifier
ISO Topic(s)	biota
National Agricultural Library Thesaurus Term	genomics genes prediction genome assembly sequence analysis genome Manduca sexta insects models insect biochemistry immunity insect larvae allelochemicals nicotine tissues gene expression regulation apoptosis vacuoles exoskeleton egg shell muscles vision ion channels signal transduction neuropeptides neurotransmitters lipid metabolism
Ag Data Commons Keywords	Genomics & Genetics Genome Genome assembly Genomics & Genetics Genome Genomics & Genetics
Program	Manduca sexta Organism project Insects 5K – i5K

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