https://doi.org/10.1093/nar/gkz833
Dudchenko, O., Batra, S. S., Omer, A. D., Nyquist, S. K., Hoeger, M., Durand, N.C., … Aiden, E. L. (2017). De novo assembly of theAedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science , 356(6333), 92-95. https://doi.org/10.1126/science.aal3327
Durand, N. C., Shamim, M. S., Machol, I., Rao, S. S. P., Huntley, M., H., Lander, E. S., & Aiden, E. L. (2016). Juicer provides a one-click system for analyzing loop-resolution Hi-C experiments. Cell Systems , 3(1), 95-98. https://doi.org/10.1016/j.cels.2016.07.002
Eddy, S. R. (2011). Accelerated profile HMM searches. PLoS Computational Biology , 7(10), e1002195. https://doi.org/10.1371/journal.pcbi.1002195
El-Gebali, S., Mistry, J., Bateman, A., Eddy, S. R., Luciani, A., Potter, S. C., … Finn, R. D. (2019). The Pfam protein families database in 2019. Nucleic Acids Research , 47(D1), D427–D432. https://doi.org/10.1093/nar/gky995
Emms, D. M., & Kelly, S. (2019). OrthoFinder: phylogenetic orthology inference for comparative genomics. Genome Biology , 20(1), 238. https://doi.org/10.1186/s13059-019-1832-y
Enayati, A. A., Ranson, H., & Hemingway, J. (2005). Insect glutathione transferases and insecticide resistance. Insect Molecular Biology , 14, 3-8. https://doi.org/10.1111/j.1365-2583.2004.00529.x
Ewart, G. D., Cannell, D., Cox, G. B., & Howells A. J. (1994). Mutational analysis of the traffic ATPase (ABC) transporters involved in uptake of eye pigment precursors in Drosophila melanogaster . Implications for structure-function relationships. The Journal of Biological Chemistry , 269, 10370-10377.
Faddeeva-Vakhrusheva, A., Kraaijeveld, K., Derks, M. F. L., Anvar, S. Y., Agamennone, V., Suring, W., … Roelofs, D. (2017). Coping with living in the soil: the genome of the parthenogenetic springtailFolsomia candida . BMC Genomics , 18, 493. https://doi.org/10.1186/s12864-017-3852-x
Fan, Z., Yuan, T., Liu, P., Wang, L. Y., Jin, J. F., Zhang, F., & Zhang, Z. S. (2021) A chromosome-level genome of the spiderTrichonephila antipodiana reveals the genetic basis of its polyphagy and evidence of an ancient whole-genome duplication event.Gigascience , 10(3), giab016. https://doi.org/10.1093/gigascience/giab016
Ferrier, D. E., & Minguillón, C. (2003). Evolution of the Hox/ParaHox gene clusters. The International Journal of Developmental Biology , 47 (7-8), 605-611.
Feyereisen, R. (2006). Evolution of insect P450. Biochemical Society Transactions , 34(6), 1252-1255.
Feyereisen, R. (2012). Insect CYP genes and P450 enzymes. In: L. I. Gilbert (Ed.), Insect Molecular Biology and Biochemistry (pp. 236-316). Academic Press.
Finn, R. D., Attwood, T. K., Babbitt, P. C., Bateman, A., Bork, P., Bridge, A. J., … Mitchell, A. L. (2017). InterPro in 2017-beyond protein family and domain annotations. Nucleic Acids Research , 45(D1), D190-D199. https://doi.org/10.1093/nar/gkw1107
Flanagan, J. U., & Smythe, M. L. (2011). Sigma-class glutathione transferases. Drug Metabolism Reviews , 43(2), 194-214. https://doi.org/10.3109/03602532.2011.560157
Flynn, J. M., Hubley, R., Goubert, C., Rosen, J., Clark, A. G., Feschotte, C., & Smit A. F. (2020). RepeatModeler2 for automated genomic discovery of transposable element families. Proceedings of the National Academy of Sciences , 117(17), 9451-9457. https://doi.org/10.1073/pnas.1921046117
Fountain, M. T. & Hopkin, S. P. (2005).Folsomia candida (Collembola): a “standard” soil arthropod.Annual Review of Entomology , 50, 201-222. https://doi.org/10.1146/annurev.ento.50.071803.130331
Frati, F., Negri, I., Fanciulli, P. P., Pellecchia, M., De Paola, V., Scali, V., & Dallai, R. (2004). High levels of genetic differentiation between Wolbachia -infected and non-infected populations ofFolsomia candida (Collembola, Isotomidae). Pedobiologia , 48, 461-468. https://doi.org/10.1016/j.pedobi.2004.04.004
Fromm, B., Billipp, T., Peck, L. E. Johansen, M., Tarver, J. E., King, B. L., Newcomb, J. M., Sempere, L. F., Flatmark, K., Hovig, E., & Peterson, K. J. (2015). A uniform system for the annotation of vertebrate microRNA genes and the evolution of the human microRNAome.Annual Review of Genetics , 49, 213-242. https://doi.org/10.1146/annurev-genet-120213-092023
Grant, J. R., & Stothard, P. (2008). The CGView Server: a comparative genomics tool for circular genomes, Nucleic Acids Research , 36(suppl_2), W181–W184. https://doi.org/10.1093/nar/gkn179
Grbić, M., Van Leeuwen, T., Clark, R. Rombauts, S., Rouzé, P., Grbić, V., Osborne, E. J., …Van de Peer, Y. (2011). The genome ofTetranychus urticae reveals herbivorous pest adaptations.Nature , 479, 487-492 https://doi.org/10.1038/nature10640
Guan, D., McCarthy, S. A., Wood, J., Howe, K., Wang, Y., & Durbin, R. (2020). Identifying and removing haplotypic duplication in primary genome assemblies. Bioinformatics , 36(9), 2896-2898. https://doi.org/10.1093/bioinformatics/btaa025
Gunstone, T., Cornelisse, T., Klein, K., Dubey, A. & Donley. N. (2021). Pesticides and soil invertebrates: a hazard assessment. Frontiers in Environmental Science , 9, 643847. https://doi.org/10.3389/fenvs.2021.643847
Haas, B. J., Salzberg, S. L., Zhu, W. Pertea, M., Allen, J. E., Orvis, J., White, O., Buell, C. R., & Wortman, J. R. (2008). Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments. Genome Biology , 9, R7. https://doi.org/10.1186/gb-2008-9-1-r7
Han, M. V., Thomas, G., Lugo-Martinez, J., Hah, M. W. (2013). Estimating gene gain and loss rates in the presence of error in genome assembly and annotation using CAFE 3. Molecular Biology and Evolution , 30 (8), 1987-1997. https://doi.org/10.1093/molbev/mst100
Hanson, S. J., Stelzer, C. P., Welch, D. B. M. & Logsdon, J. M. (2013). Comparative transcriptome analysis of obligately asexual and cyclically sexual rotifers reveals genes with putative functions in sexual reproduction, dormancy, and asexual egg production. BMC Genomics , 14, 412. https://doi.org/10.1186/1471-2164-14-412
Hebert, P. D., Cywinska, A., Ball, S. L., deWaard, J. R. (2003). Biological identifications through DNA barcodes. Proceedings of the Royal Society B, Biological Science , 270(1512), 313-321.https://doi.org/10.1098/rspb.2002.2218
Hock, T., Cottrill, T., Keegan, J., Garza D. (2000). The E23 early gene of Drosophila encodes an ecdysone-inducible ATP-binding cassette transporter capable of repressing ecdysone-mediated gene activation.Proceedings of the National Academy of Sciences , 97(17), 9519-9524. https://doi.org/10.1073/pnas.160271797
Holt, C., & Yandell, M. (2011). MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects.BMC Bioinformatics , 12(1), 491. https://doi.org/10.1186/1471-2105-12-491
Hopkins, T. (1992). Insect cuticle sclerotization. Annual Review of Entomology , 37, 273-302. https://doi.org/10.1146/annurev.ento.37.1.273
Hopkins, T. L., & Ahmad, S. A. (1991). Flavonoid wing pigments in grasshoppers. Experientia , 47, 1089-1091. https://doi.org/10.1007/BF01923349
Hopkin, S. (1997). Biology of the Springtails (Insecta: Collembola) . Oxford University Press, Oxford.
Hu, J., Fan, J., Sun, Z., & Liu S. (2020). NextPolish: a fast and efficient genome polishing tool for long read assembly.Bioinformatics , 36(7), 2253-2255. https://doi.org/10.1093/bioinformatics/btz891
Huang, C., Chen, W., Ke, X., Li, Y., & Luan, Y. (2019). A multi-generational risk assessment of Cry1F on the non-target soil organism Folsomia candida  (Collembola) based on whole transcriptome profiling. PeerJ , 7, e6924. https://doi.org/10.7717/peerj.6924
Hubley, R., Finn, R. D., Clements, J., Eddy, S. R., Jones, T. A., Bao, W., Smit, A. F. A., & Wheeler, T. J. (2016). The Dfam database of repetitive DNA families. Nucleic Acids Research , 44(D1): D81-D89. https://doi.org/10.1093/nar/gkv1272
Huerta-Cepas, J., Forslund, K., Coelho, L. P., Szklarczyk, D., Jensen, L. J., von Mering, C., & Bork, P. (2017). Fast genome-wide functional annotation through orthology assignment by eggNOG-Mapper.Molecular Biology and Evolution , 34(8), 2115-2122. https://doi.org/10.1093/molbev/msx148
ISO (International Organization for Standardization). (2014). Soil quality - Inhibition of reproduction of Collembola ( Folsomia candida) by soil contaminants (ISO Standard No. 11267:2014). https://www.iso.org/standard/57582.html
Jo, B. S., & Choi, S. S. (2015). Introns: the functional benefits of introns in genomes. Genomics and Informatics , 13(4), 112-118. https://doi.org/10.5808/GI.2015.13.4.112
Katoh, K., & Standley, D. M. (2013). MAFFT multiple sequence alignment software version 7: Improvements in performance and usability.Molecular Biology and Evolution , 30(4), 772-780. https://doi.org/10.1093/molbev/mst010
Kearse, M., Moir, R., Wilson, A., Stones-Havas, S., Cheung, M., Sturrock, S., Buxton, S., Cooper, A., Markowitz, S., Duran, C., Thierer, T., Ashton, B., Meintjes, P., & Drummond, A. (2012). Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics , 28(12), 1647–1649. https://doi.org/10.1093/bioinformatics/bts199
Kim, D., Paggi, J. M., Park, C., Bennett C. & Salzberg S. L. (2019). Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. Nature Biotechnology , 37(8):907-915. https://doi.org/10.1038/s41587-019-0201-4
Kolmogorov, M., Yuan, J., Lin, Y., Pevzner, P. A. (2019). Assembly of long, error-prone reads using repeat graphs. Nature Biotechnology , 37(5), 540-546. https://doi.org/10.1038/s41587-019-0072-8
Kovaka S, Zimin, A. V., Pertea, G. M., Razaghi, R., Salzberg S. L., & Pertea M. (2019). Transcriptome assembly from long-read RNA-seq alignments with StringTie2, Genome Biology , 20(1), 278. https://doi.org/10.1186/s13059-019-1910-1
Kozomara, A. & Griffiths-Jones, S. (2014). miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Research , 42(D1), D68-D73. https://doi.org/10.1093/nar/gkt1181
Kriventseva, E. V., Kuznetsov, D., Tegenfeldt, F., Manni, M., Dias, R., Simão, F. A., & Zdobnov, E. M. (2019). OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs. Nucleic Acids Research , 47(D1), D807-D811. https://doi.org/10.1093/nar/gky1053.
Kruh, G. D., & Belinsky, M. G. (2003). The MRP family of drug efflux pumps. Oncogene , 22, 7537-7552. https://doi.org/10.1038/sj.onc.1206953
Labbé, R., Caveney, S., & Donly, C. (2011). Genetic analysis of the xenobiotic resistance-associated ABC gene subfamilies of the Lepidoptera. Insect Molecular Biology , 20, 243-256. https://doi.org/10.1111/j.1365-2583.2010.01064.x
Lee, S.-W., Shono, T., Tashiro, S., & Ohta, K. (2005). Metabolism of pyraclofos in housefly, Musca domestica . Journal of Asia-Pacific Entomology , 8, 387-392. https://doi.org/10.1016/S1226-8615(08)60261-7
Lawrence, M., Daujat, S., & Schneider, R. (2016). Lateral thinking: how histone modifications regulate gene expression. Trends in Genetics , 32, 42-56. https://doi.org/10.1016/j.tig.2015.10.007
Letunic, L., & Bork, P. (2018). 20 years of the SMART protein domain annotation resource. Nucleic Acids Research , 46(D1), D493-D496. https://doi.org/10.1093/nar/gkx922
Lewis, T. E., Sillitoe, I., Dawson, N., Lam, S. D., Clarke, T., Lee, D., Orengo, C. & Lees, J. (2018). Gene3D: extensive prediction of globular domains in proteins. Nucleic Acids Research , 46(D1), D435-D439. https://doi.org/10.1093/nar/gkx1069
Li, H. (2018). Minimap2: pairwise alignment for nucleotide sequences.Bioinformatics , 34(18), 3094-3100. https://doi.org/10.1093/bioinformatics/bty191
Li, H., & Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics , 25(14), 1754-1760. https://doi.org/10.1093/bioinformatics/btp324
Li, X. C., Schuler, M. A., Berenbaum, M. R. (2007). Molecular mechanisms of metabolic resistance to synthetic and natural xenobiotics.Annual Review of Entomology , 52, 231-253. https://doi.org/10.1146/annurev.ento.51.110104.151104
Li, Z., Tiley, G. P., Galuska, S. R., Reardon, C. R., Kidder, T. I., Rundell, R. J., & Barker, M. S. (2018). Multiple large-scale gene and genome duplications during the evolution of hexapods. Proceedings of the National Academy of Sciences , 115, 4713-4718. https://doi.org/10.1073/pnas.1710791115
Liu, A., Chen, W., Huang, C., Qian, C., Liang, Y., Li, S., Zhan, S., & Luan, Y.-X. (2020). MicroRNA evolution provides new evidence for a close relationship of Diplura to Insecta. Systematic Entomology , 45, 365-377. https://doi.org/10.1111/syen.12401
Lock, K., & Janssen, C. R. (2003). Effect of new soil metal immobilizing agents on metal toxicity to terrestrial invertebrates. Environmental Pollution, 121(1), 123-27. https://doi.org/10.1016/s0269-7491(02)00202-6
Ma, Y., Chen, W. J., Li, Z. H., Zhang, F., Gao, Y., & Luan, Y. X. (2017). Revisiting the phylogeny of Wolbachia in Collembola.Ecology and Evolution , 7(7), 2009-2017. https://doi.org/10.1002/ece3.2738
Mackenzie, S. M., Brooker, M. R., Gill, T. R., Cox, G. B., Howells, A. J., & Ewart, G. D. (1999). Mutations in the white gene ofDrosophila melanogaster affecting ABC transporters that determine eye colouration. Biochimica Biophysica Acta , 1419(2), 173-185. https://doi.org/10.1016/s0005-2736(99)00064-4
Manni, M., Simao, F. A., Robertson, H. M., Gabaglio, M. A., Waterhouse, R. M., Misof, B., Niehuis, O., Szucsich, N. U., Zdobnov, E. M. (2020). The genome of the blind soil-dwelling and ancestrally wingless dipluranCampodea augens : a key reference hexapod for studying the emergence of insect innovations. Genome Biology and Evolution , 12(1), 3534-3549. https://doi.org/10.1093/gbe/evz260
Marchler-Bauer, A., Bo, Y., Han, L., He, J., Lanczycki, C. J., … Bryant, S. H. (2017). CDD/SPARCLE: functional classification of proteins via subfamily domain architectures. Nucleic Acids Research , 45(D1), D200-D203. https://doi.org/10.1093/nar/gkw1129.
Minh, B. Q., Schmidt, H. A., Chernomor, O., Schrempf, D., Woodhams, M. D., von Haeseler, A., Lanfear, R. (2020). IQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era.Molecular Biology and Evolution , 37(5), 1530-1534. https://doi.org/10.1093/molbev/msaa015.
Misof, B., Liu, S., Meusemann, K., Peters, R. S., Donath, A., Mayer, C., … Zhou, X. (2014). Phylogenomics resolves the timing and pattern of insect evolution. Science , 7, 346(6210), 763-767. https://doi.org/10.1126/science.1257570
Moreau, C., Prost, A. L., Derand, R., & Vivaudou, M. (2005). SUR, ABC proteins targeted by KATP channel openers. Journal of Molecular and Cellular Cardiology , 38, 951-963. https://doi.org/10.1016/j.yjmcc.2004.11.030
Nardi, F., Spinsanti, G., Boore, J., Carapelli, A., Dallai, R., & Frati, F. (2003). Hexapod origins: monophyletic or paraphyletic?Science , 299(5614), 1887-1889. https://doi.org/10.1126/science.1078607
Nawrocki, E. P., & Eddy, S. R. (2013). Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics , 29(22), 2933-2935. https://doi.org/10.1093/bioinformatics/btt509
Oakeshott, J. G., Claudianos, C., Campbell, P. M., Newcomb, R. D., & Russell, R. J. (2005). Biochemical genetics and genomics of insect esterases. In L. I. Gilbert, K. Iatrou, S. S. Gill, (Eds.),Comprehensive molecular insect science (pp. 309-381). Oxford: Elsevier. https://doi.org/10.1016/B0-44-451924-6/00073-9
Oakley, A. (2011). Glutathione transferases: a structural perspective.Drug Metabolism Reviews , 43 (2), 138-151. https://doi.org/10.3109/03602532.2011.558093
Plasterk, R. H. A. (2006). Micro RNAs in animal development.Cell , 124(5), 877-881. https://doi.org/10.1016/j.cell.2006.02.030
Potapov, M., & Yan, G. (2012). Folsomia of China I—fimetaria group (Collembola: Isotomidae). Annales de la Société Entomologique de France , 48 (1-2), 51-56. https://doi.org/10.1080/00379271.2012.10697750
Roncalli, V., Cieslak, M. C., Passamaneck, Y., Christie, A. E., & Lenz, P.H. (2015). Glutathione S-Transferase (GST) gene diversity in the crustacean Calanus finmarchicus – Contributors to Cellular Detoxification. PLOS ONE , 10(5), e0123322. https://doi.org/10.1371/journal.pone.0123322
Roelofs, D., Zwaenepoel, A., Sistermans, T. Nap, J., Kampfraath, A. A. Van de Peer, Y., Ellers J., & Kraaijeveld, K. (2020). Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution. BMC Biology , 18, 57. https://doi.org/10.1186/s12915-020-00789-1
Singh, N. D. (2019). Wolbachia infection associated with increased recombination in Drosophila . G3 (Bethesda) , 9(1), 229-237. https://doi.org/10.1534/g3.118.200827
Smit, A. F. A., Hubley, R., & Green, P. 2013-2015. Repeat Masker Open-4.0. Available from http://www.repeatmasker.org
Smith, J. N. (1955). Detoxification mechanisms in insects.Biological Reviews , 30, 455-475. https://doi.org/10.1111/j.1469-185X.1955.tb01548.x
Stanke, M., Steinkamp, R., Waack, S., Morgenstern, B. (2004). AUGUSTUS: a web server for gene finding in eukaryotes. Nucleic Acids Research , 32(suppl 2), W309-W312. https://doi.org/10.1093/nar/gkh379
Steinegger, M., & Söding, J. (2017). MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature Biotechnology , 35, 1026-1028. https://doi.org/10.1038/nbt.3988
Subramanian, Bm., Gao, S., Lercherm M, J., Hu, S., & Chen, W. H. (2019). Evolview v3: a webserver for visualization, annotation, and management of phylogenetic trees. Nucleic Acids Research , 47(W1), W270-W275. https://doi.org/10.1093/nar/gkz357
Talbert, P. B., & Henikoff, S. (2014). Environmental responses mediated by histone variants. Trends in Cell Biology , 24(11), 642-650. https://doi.org/10.1016/j.tcb.2014.07.006
Talla, V., Suh, A., Kalsoom, F., Dincă, V., Vila, R., Friberg, M., Wiklund, C., Backström, N. (2017). Rapid increase in genome size as a consequence of transposable element hyperactivity in wood-white (Leptidea ) butterflies, Genome Biology and Evolution , 9(10), 2491-2505. https://doi.org/10.1093/gbe/evx163
Tully, T., D’Haese, C. A., Richard, M., & Ferriere, R. (2006). Two major evolutionary lineages revealed by molecular phylogeny in the parthenogenetic Collembola species Folsomia candida .Pedobiologia , 50(2), 95-104. https://doi.org/10.1016/j.pedobi.2005.11.003
Tully, T., & Potapov, M. (2015). Intraspecific phenotypic variation and morphological divergence of strains of Folsomia candida (Willem) (Collembola: Isotomidae), the ”standard” test springtaill. PLoS ONE , 10(9), e0136047. https://doi.org/10.1371/journal. pone.0136047
Vizueta, J., Sánchez-Gracia, A., & Rozas, J. (2020). BITACORA: A comprehensive tool for the identification and annotation of gene families in genome assemblies. Molecular Ecology Resources , 20, 1445-1452. https://doi.org/10.1111/1755-0998.13202
Voorrips, R. E. (2002). MapChart: Software for the graphical presentation of linkage maps and QTLs. The Journal of Heredity , 93 (1), 77-78. https://doi.org/10.1093/jhered/93.1.77
Wang, Y., Tang, H., DeBarry, J. D., Tan, X., Li, J., Wang, X., Lee, T. H., Jin, H., Marler, B., Guo, H., Kissinger, J. C., Paterson, A. H. (2012). MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity. Nucleic Acids Research , 40(7), e49.https://doi.org/10.1093/nar/gkr1293
Waterhouse, R. M., Seppey, M., Simão, F. A., Manni, M., Ioannidis, P., Klioutchnikov, G., Kriventseva, E. V., & Zdobnov, E. M. (2018). BUSCO applications from quality assessments to gene prediction and phylogenomics. Molecular Biology and Evolution , 35, 543-548. https://doi.org/10.1093/molbev/msx319
Wenzel, J. J., Piehler, A., & Kaminski, W. E. (2007). ABC A-subclass proteins: gatekeepers of cellular phospho- and sphingolipid transport.Frontiers in Bioscience-Landmark , 12, 3177-3193. https://doi.org/10.2741/2305
Werren, J. H. (1998). Wolbachia and speciation. In D. Howard and S. Berlocher (eds.), Endless forms: Species and speciation (pp. 245-260). Oxford University Press.
Wilson, D., Pethica, R., Zhou, Y., Talbot, C., Vogel, C., Madera, M., Chothia, C., & Gough J. (2009). SUPERFAMILY—sophisticated comparative genomics, data mining, visualization and phylogeny. Nucleic Acids Research , 37(Suppl_1), D380-D386. https://doi.org/10.1093/nar/gkn762
Xiong, P., Schneider, R. F., Hulsey, C. D., Meyer, A., & Franchini, P. (2019). Conservation and novelty in the microRNA genomic landscape of hyperdiverse cichlid fishes. Scientific reports , 9(1), 13848. https://doi.org/10.1038/s41598-019-50124-0
Yang, Z. H. (2007). PAML 4: phylogenetic analysis by maximum likelihood.Molecular Biology and Evolution , 24(8), 1586-1591. https://doi.org/10.1093/molbev/msm088
Yu, G., Wang, L. G., Han, Y., & He, Q. Y. (2012). clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS, 16(5), 284-287. https://doi.org/10.1089/omi.2011.0118
Zhang, F., Ding, Y., Zhou, Q. S., Wu, J., Luo, A., & Zhu, C. D. (2019). A High-quality draft genome assembly of Sinella curviseta : a soil model organism (Collembola). Genome Biology and Evolution , 11(2), 521-530. https://doi.org/10.1093/gbe/evz013
Zwaenepoel, A., & Van de Peer, Y. (2019). Inference of ancient whole-genome duplications and the evolution of gene duplication and loss rates. Molecular Biology and Evolution , 36, 1384-404. https://doi.org/10.1093/molbev/msz088