Lobe-spurred sweat bee (Lasioglossum pauxillum)
Lasioglossum pauxillum, which is widespread in the western paleartic, has two worker broods in the spring and summer. These are followed by a reproductive brood of males and females that will overwinter to be new nest foundresses the following spring. Read more about lobe-spurred sweat bees on iNaturalist.org.
Mining bee, Lasioglossum pauxillum (Schenck) f, photo by Robin Williams, uploaded by Nigel Jones. Chesil Beach, Dorset SY5087. CC BY-NC-ND 2.0, via flickr.com
Chromosome-length genome assembly
Download the LPAU_genome_v2.1.1.fasta.gz file containing the chromosome-length (2n=18) assembly of the lobe-spurred sweat bee genome. All modifications with respect to the draft (see below) are annotated in the LPAU_genome_v2.1.1.assembly file. Some basic stats associated with the new reference, LPAU_genome_v2.1.1, are listed below. The full data release can be explored here.
Contig length (bp)
Number of contigs
Contig N50 (bp)
Longest contig (bp)
Scaffold length (bp)
Number of scaffolds
Scaffold N50 (bp)
Longest scaffold (bp)
The chromosome-length genome assembly is based on the draft assembly LPAU_genome_v1.0, credited below.
3D Assembly was performed using 3D-DNA pipeline (Dudchenko et al., Science, 2017). The genome was reviewed using Juicebox Assembly Tools (Dudchenko et al., bioRxiv, 2018). See Methods for more information.
The head and thorax sample for in situ Hi-C preparation was donated by a female individual named COI-eq ID: Paux1, Legacy ID: LPAU080, 4-letter alias: LPAU, alt: Apo0085, and obtained from Kocher Lab, Princeton University.
Hi-C Contact maps
Hi-C data was aligned to the draft reference using Juicer (Durand, Shamim et al., Cell Systems, 2016), and contact maps visualizing the alignments with respect to the draft and the new reference were built using 3D-DNA (Dudchenko et al., Science, 2017). The contact maps can be explored below via Juicebox.js interactive tool (Robinson et al., Cell Systems, 2018). To explore the assembly in greater detail, please download the .hic and .assembly files from the data release folder and use Juicebox Assembly Tools (Dudchenko et al., bioRxiv, 2018).
If you use this genome assembly in your research, please check that the conditions of use associated with the draft permit it, and acknowledge the following work.
Dudchenko, O., Batra, S.S., Omer, A.D., Nyquist, S.K., Hoeger, M., Durand, N.C., Shamim, M.S., Machol, I., Lander, E.S., Aiden, A.P., Aiden, E.L., 2017. De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science 356, 92–95. https://doi.org/10.1126/science.aal3327.
Dudchenko, O., Shamim, M.S., Batra, S., Durand, N.C., Musial, N.T., Mostofa, R., Pham, M., Hilaire, B.G.S., Yao, W., Stamenova, E., Hoeger, M., Nyquist, S.K., Korchina, V., Pletch, K., Flanagan, J.P., Tomaszewicz, A., McAloose, D., Estrada, C.P., Novak, B.J., Omer, A.D., Aiden, E.L., 2018. The Juicebox Assembly Tools module facilitates de novo assembly of mammalian genomes with chromosome-length scaffolds for under $1000. bioRxiv 254797. https://doi.org/10.1101/254797.
This is a work in progress. If you notice any discrepancies in the map or have data that confirms or contradicts the suggested reference, please email us at email@example.com or leave a comment on the Forum.