Evidence map›Paper›PMID 33718948›Full record

ArticleGigaScience2021

Chromosome-level genome assemblies of the malaria vectors Anopheles coluzzii and Anopheles arabiensis.

Anton Zamyatin, Pavel Avdeyev, Jiangtao Liang, Atashi Sharma, Chujia Chen, Varvara Lukyanchikova, Nikita Alexeev, Zhijian Tu, Max A Alekseyev, Igor V Sharakhov

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in GigaScience, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
3.3field-weighted citation impact, top 9% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

16 citing papers in PubMed, 25 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 4 institutions in 2 countries.

Anton ZamyatinComputer Technologies Laboratory, ITMO University, Kronverkskiy Prospekt 49-A, Saint Petersburg 197101, Russia.
Pavel AvdeyevDepartment of Mathematics, The George Washington University, 801 22nd Street NW, Washington, DC 20052, USA.
Jiangtao LiangDepartment of Entomology, Virginia Polytechnic Institute and State University, 170 Drillfield Drive, Blacksburg, VA 24061, USA.
Atashi SharmaFralin Life Sciences Institute, Virginia Polytechnic Institute and State University, 360 West Campus Drive, Blacksburg, VA 24061, USA.
Chujia ChenFralin Life Sciences Institute, Virginia Polytechnic Institute and State University, 360 West Campus Drive, Blacksburg, VA 24061, USA.
Varvara LukyanchikovaDepartment of Entomology, Virginia Polytechnic Institute and State University, 170 Drillfield Drive, Blacksburg, VA 24061, USA.
Nikita AlexeevComputer Technologies Laboratory, ITMO University, Kronverkskiy Prospekt 49-A, Saint Petersburg 197101, Russia.
Zhijian TuFralin Life Sciences Institute, Virginia Polytechnic Institute and State University, 360 West Campus Drive, Blacksburg, VA 24061, USA.
Max A AlekseyevDepartment of Mathematics, The George Washington University, 801 22nd Street NW, Washington, DC 20052, USA.
Igor V SharakhovDepartment of Entomology, Virginia Polytechnic Institute and State University, 170 Drillfield Drive, Blacksburg, VA 24061, USA.
Virginia Tech · USITMO University · RUMilken Institute · USInstitute of Cytology and Genetics · RU

Funding

Improving genome assemblies for species of the Anopheles gambiae complexR21AI135298 · NIAID · VIRGINIA POLYTECHNIC INST AND ST UNIV · PI SHARAKHOV, IGOR V · 2018 to 2019
$440k
NIAID NIH HHS R21 AI135298
6 · The paper itself

Abstract

backgroundAnopheles coluzzii and Anopheles arabiensis belong to the Anopheles gambiae complex and are among the major malaria vectors in sub-Saharan Africa. However, chromosome-level reference genome assemblies are still lacking for these medically important mosquito species.

findingsIn this study, we produced de novo chromosome-level genome assemblies for A. coluzzii and A. arabiensis using the long-read Oxford Nanopore sequencing technology and the Hi-C scaffolding approach. We obtained 273.4 and 256.8 Mb of the total assemblies for A. coluzzii and A. arabiensis, respectively. Each assembly consists of 3 chromosome-scale scaffolds (X, 2, 3), complete mitochondrion, and unordered contigs identified as autosomal pericentromeric DNA, X pericentromeric DNA, and Y sequences. Comparison of these assemblies with the existing assemblies for these species demonstrated that we obtained improved reference-quality genomes. The new assemblies allowed us to identify genomic coordinates for the breakpoint regions of fixed and polymorphic chromosomal inversions in A. coluzzii and A. arabiensis.

conclusionThe new chromosome-level assemblies will facilitate functional and population genomic studies in A. coluzzii and A. arabiensis. The presented assembly pipeline will accelerate progress toward creating high-quality genome references for other disease vectors.

Indexed as

AnophelesMalariaAnimalsChromosomesGenomicsMosquito VectorsAnopheles arabiensisAnopheles coluzziigenome assemblyHi-C chromosome conformation capturemalaria mosquitoOxford nanopore sequencing

Identifiers

PMID33718948
PMCPMC7957348
OpenAlexW3138456139

What OpenQuestion holds

Textmetadata
LicenceCC BY
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.