Correction: Highly contiguous assemblies of 101 drosophilid genomes

Kim, Bernard; Wang, Jeremy; Miller, Danny E.; Barmina, Olga; Delaney, Emily; Thompson, Ammon; Comeault, Aaron A.; Peede, David; D'Agostino, Emmanuel R. R.; Peláez, Julianne; Aguilar, Jessica M; Haji, Diler; Matsunaga, Teruyuki; Armstrong, Ellie E.; Zych, Molly; Ogawa, Yoshitaka; Stamenković‐Radak, Marina; Jelić, Mihailo; Veselinović, Marija Savić; Tanasković, Marija; Erić, Pavle; Gao, Jian‐Jun; Katoh, Takehiro K.; Toda, Masanori J.; Watabe, Hideaki; Watada, Masayoshi; Davis, Jeremy S; Moyle, Leonie C.; Manoli, Giulia; Bertolini, Enrico; Košťál, Vladimı́r; Hawley, R. Scott; Takahashi, Aya; Jones, Corbin D.; Price, Daniel O.; Whiteman, Noah K.; Kopp, Artyom; Matute, Daniel R.; Petrov, Dmitri A.

doi:10.7554/elife.78579

Cited by 1 publication

(4 citation statements)

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“…(1998) performed Southern blot analysis and concluded that the major locus includes 25-30 arrays of both a quintet organization (H2a, H2b, H3, H4 , and H1 ) and a quartet lacking H1 , while the minor locus includes 6-8 quintet arrays. Kim et al . (2022) recently assembled 101 drosophilid genomes using PacBio long-read sequencing.…”

Section: Resultsmentioning

confidence: 99%

“…We annotated the D. virilis genome assembly (Kim et al . 2022) using SnapGene by searching for histone protein conservation with D. melanogaster.…”

Section: Methodsmentioning

confidence: 99%

“…We annotated the D. virilis genome assembly (Kim et al 2022) (Nakashima et al 2016). We aligned sequences using Coffee (Erb et al 2012) and SnapGene.…”

Section: Sequence Annotation and Alignmentsmentioning

confidence: 99%

“…Schienman et al (1998) performed Southern blot analysis and concluded that the major locus includes 25-30 arrays of both a quintet organization (H2a, H2b, H3, H4, and H1) and a quartet lacking H1, while the minor locus includes 6-8 quintet arrays. Kim et al (2022) recently assembled 101 drosophilid genomes using PacBio long-read sequencing. We annotated the D. virilis histone loci from the Kim et al assembly and determined that the major locus includes 5 quintet arrays and 27 quartet arrays, as well as many interrupted arrays and gene fragments.…”

Section: Sequence Differences Between D Virilis Histone Locimentioning

confidence: 99%

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MSL2 targets histone genes inDrosophila virilis

Xie

Hodkinson

Comstra

et al. 2022

Preprint

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Histone genes are amongst the most evolutionary conserved in eukaryotic genomes, yet cis-regulatory mechanisms of histone gene regulation differ considerably amongst species. In Drosophila melanogaster, an interaction between GA-rich cis elements in the H3/H4 promoter and the GA-binding transcription factor CLAMP is important for promoting histone gene regulation and factor recruitment to the locus. CLAMP also participates in male dosage compensation by recruiting the Male Specific Lethal Complex (MSLc) to the X-chromosome. We discovered that the male-specific protein of MSLc, MSL2, is recruited to the autosomal major histone locus in D. virilis but not to the minor locus or to the single histone locus in other species. While the histone coding sequences are well conserved between species, the critical GA-rich cis elements in the H3/H4 promoter are poorly conserved between D. melanogaster and D. virilis. We show that CLAMP still targets the two D. virilis histone loci in vivo. Further, CLAMP interacts with the D. virilis H3/H4 promoter in vitro, even when the poorly-conserved GA-rich cis elements are deleted, indicating that the protein interacts differently with the D. virilis promoter than it does with the D. melanogaster promoter. Since CLAMP and MSL2 directly interact in D. melanogaster, we propose that D. virilis CLAMP recruits MSL2 to an ectopic autosomal site through interaction with X-like cis elements. Further, localization of MSL2 to one of the D. virilis histone loci suggests that the loci are regulated differently and that males and females have different requirements for histone gene regulation.

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Section: Resultsmentioning

confidence: 99%

“…We annotated the D. virilis genome assembly (Kim et al . 2022) using SnapGene by searching for histone protein conservation with D. melanogaster.…”

Section: Methodsmentioning

confidence: 99%

“…We annotated the D. virilis genome assembly (Kim et al 2022) (Nakashima et al 2016). We aligned sequences using Coffee (Erb et al 2012) and SnapGene.…”

Section: Sequence Annotation and Alignmentsmentioning

confidence: 99%

Section: Sequence Differences Between D Virilis Histone Locimentioning

confidence: 99%

See 2 more Smart Citations