The genome sequence of the black needle fly, Leuctra nigra (Olivier, 1811)

Clifford, Caleala; Macadam, Craig R.; Price, Benjamin W.

doi:10.12688/wellcomeopenres.19082.1

Wellcome Open Res

2023

DOI: 10.12688/wellcomeopenres.19082.1

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The genome sequence of the black needle fly, Leuctra nigra (Olivier, 1811)

Caleala Clifford¹,

Craig R. Macadam²,

Benjamin W. Price³

Abstract: We present a genome assembly from an individual male Leuctra nigra (black needle fly; Arthropoda; Insecta; Plecoptera; Leuctridae). The genome sequence is 536.3 megabases in span. Most of the assembly is scaffolded into 13 chromosomal pseudomolecules, including the X sex chromosome. The mitochondrial genome has also been assembled and is 17.6 kilobases in length.

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“…In addition, the authors could have provided some context on the phylogenetic position of the stoneflies within the Polyneoptera, which has been recently revised ( 1 ). They also could have mentioned the two other stonefly genomes produced by the Darwin Tree of life consortium ( 2 , 3 ) highlighting similarities and differences.…”

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confidence: 99%

The genome sequence of a stonefly, Nemoura dubitans (Morton, 1894)

Farr,

Macadam

2023

Wellcome Open Res

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confidence: 99%

The genome sequence of a stonefly, Nemoura dubitans (Morton, 1894)

Farr,

Macadam

2023

Wellcome Open Res

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An unusually large genome from an unusually large stonefly: A chromosome-length genome assembly for the giant salmonfly, Pteronarcys californica (Plecoptera: Pteronarcyidae)

Eichert,

Sproul,

Tolman

et al. 2024

Journal of Heredity

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Pteronarcys californica (Newport 1848) is commonly referred to as the giant salmonfly and is the largest species of stonefly (Insecta: Plecoptera) in the western United States. Historically, it was widespread and abundant in western rivers, but populations have experienced a substantial decline in the past few decades, becoming locally extirpated in numerous rivers in Utah, Colorado, and Montana. Although previous research has explored the ecological variables conducive to the survivability of populations of the giant salmonfly, a lack of genomic resources hampers exploration of how genetic variation is spread across extant populations. To accelerate research on this imperiled species, we present a de novo chromosomal-length genome assembly of P. californica generated from PacBio HiFi sequencing and Hi-C chromosome conformation capture. Our assembly includes 14 predicted pseudo chromosomes and 98.8% of Insecta universal core orthologs. At 2.40 gigabases, the P. californica assembly is the largest of available stonefly assemblies, highlighting at least 9.5-fold variation in assembly size across the order. Repetitive elements (REs) account for much of the genome size increase in P. californica relative to other stonefly species, with the content of Class I retroelements alone exceeding the entire assembly size of all but two other species studied. We also observed preliminary suborder-specific trends in genome size that merit testing with more robust taxon sampling.

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The genome sequence of the black needle fly, Leuctra nigra (Olivier, 1811)

Cited by 2 publications

References 22 publications

The genome sequence of a stonefly, Nemoura dubitans (Morton, 1894)

The genome sequence of a stonefly, Nemoura dubitans (Morton, 1894)

An unusually large genome from an unusually large stonefly: A chromosome-length genome assembly for the giant salmonfly, Pteronarcys californica (Plecoptera: Pteronarcyidae)

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