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Insect Science 2022年第4期29卷 1226-1238页

作者： Chuan Wu Yong Zhou Tian Tian Ting-Jing Li Bin Chen chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyChongqing Normal UniversityChongqingChina

Despite worldwide distribution and rich diversity,the knowledge of mitochondrial genome(mtgenome)characteristics within the family Tenebrionidae(Coleoptera)is still very limited,and phylogenetics remain unresolved for the *** this study,the mtgenomes for 12 species are newly sequenced and *** of the species represent the first report of complete mtgenomes from the subfamily *** analysis of 36 tenebrionid mtgenomes finds that gene composition and order are the same as a theoretical ancestral insect mtgenome,and AT bias,length variation,and codon usage are consistent with other reported beetle *** intergenic overlap and gap sequences may contain phylogenetically informative information,whereas neither the conserved nor repeat sequences in the control region *** subfamilies Lagriinae,Pimeliinae,Stenochiinae,and Alleculinae are found to be monophyletic,and the subfamilies Diaperinae and Tenebrioninae polyphyletic in our ***,Lagriinae is sister to the rest of the *** the tribal level,the tribes Lagriini in the subfamily Lagrrinae;Strongyliini in Stenochiinae;Cteniopodini in Alleculinae;and Triboliini,Opatrini,and Amarygmini in Tenebrioninae are monophyletic;while Diaperini in Diaperinae,and Tenebrionini in Tenebrioninae are polyphyletic.

关键词： Alleculinac characteristics Colcopiera mtgenome phylogenetics Tenebrionidac

Genome-wide identification, characterization and evolution of cuticular protein genes in the malaria vector Anopheles sinensis （Diptera： Culicidae）

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Insect Science 2018年第5期25卷 739-750页

作者： Bai-Qi Liu Liang Qiao Qi-Yi He Yong Zhou Shuang Ren Bin Chen chongqing key laboratory of vector insects Institute of Entomology and Molecular Biology Chongqing Normal University Chongqing China

Thirteen cuticular protein （CP） families have been recognized in arthropods. In this study, 250 Anopheles sinensis CP genes were identified and named based on genome and transcriptome sequences. They were classified into 10 families based on mo- tifs and phylogenetic analyses. In 11 other insect species, nine had CP numbers 〉 150 while Apis mellifera and Tribolium castaneum had CP numbers less than 52. The CPs of eight species occupied 〉 1.4% of the total genomic gene number, whereas in three species the CPs occupied 〈 1%. The phylogenies for each CP family in An. sinensis were constructed and discussed. The 250 CPs each had 1-8 exons with 144 CPs （57.6%） having two exons. The intron length ranged from 66--3888 bp with 174 introns （54.0%） being 66--100 bp long. Except for two CPs on two contigs, 248 CPs were mapped onto 28 scaffolds with 136 genes （54.4%） restricted to five scaffolds. A total of 107 CPs were clustered and located at 27 loci. The CPR family had the conserved motif GSYS- LVEPDGTVRTV. The RR- 1 subfamily had an additional 21 amino acid （aa） motifs with the YVADENGF sequence that is common in insects. The RR-2 subfamily had an additional 50 aa motifs with two additional regions RDGDWKG and G-x（3）-VV. A comparison with 115 orthologous counterparts of An. gambiae CPs suggested purifying selection for all of these genes. This study provides basic information useful for further studies on biological functions of An. sinensis CPs as well as for comparative genomics of insect CPs.

关键词： Anopheles sinensis characterization cuticular protein genes genome-wideidentification phylogenetics Ka/Ks

Mitogenome-based phylogeny of mosquitoes(Diptera:Culicidae)

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Insect Science 2024年第2期31卷 599-612页

作者： De-Hong Chen Shu-Lin He Wen-Bo Fu Zhen-Tian Yan Yun-Jian Hu Huan Yuan Ming-Bin Wang Bin Chen chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyChongqing Normal UniversityChongqingChina

Mosquitoes are of great medical significance as vectors of many deadly *** have been widely used in phylogenetic studies,but mitogenome knowledge within the family Culicidae is limited,and Culicidae phylogeny is far from *** this study,we surveyed the mitogenomes of 149 Culicidae species,including 7 newly sequenced *** analysis of 149 mosquito mitogenomes shows gene composition and order to be identical to that of an ancestral insect,and the AT bias,length variation,and codon usage are all consistent with that of other reported Dipteran *** analyses based on the DNA sequences of the 13 protein-coding genes from the 149 species robustly support the monophyly of the subfamily Anophelinae and the tribes Aedini,Culicini,Mansonini,Sabethini,and *** resolve ambiguous relationships between clades within the subfamily Culicinae,we performed topological tests and show that Aedini is a sister to Culicini and that Uranotaenini is a sister to(Mansonini)+(Toxorhynchitini+Sabethini).In addition,we estimated divergence times using a Bayesian relaxation clock based on the sequence data and 3 fossil calibration *** results show mosquitoes diverged during the Early Jurassic with massive Culicinae radiations during the Cretaceous,coincident with the emergence of angiosperms and the burst of mammals and ***,this study,which uses the largest number of Culicidae mitogenomes sequenced to date,comprehensively reveals the mitogenome characteristics and mitogenome-based phylogeny and divergence times of Culicidae,providing information for further studies on the mitogenome,phylogeny,evolution,and taxonomic revision of Culicidae.

关键词： characterization Culicidae evolution mitogenomes mosquitoes phylogeny

Comparative analyses of simple sequence repeats(SSRs)in 23 mosquito species genomes:Identification,characterization and distribution(Diptera:Culicidae)

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Insect Science 2019年第4期26卷 607-619页

作者： Xiao-Ting Wang Yu-Juan Zhang Liang Qiao Bin Chen chongqing key laboratory of vector insects Chongqing Key Laboratory of Animal BiologyInstitute of Entomology and Molecular BiologyChongqing Normal UniversityChongqingChina

Simple sequence repeats (SSRs) exist in both eukaryotic and prokaryotic genomes and are the most popular genetic markers, but the SSRs of mosquito genomes are still not well understood. In this study, we identified and analyzed the SSRs in 23 mosquito species using Drosophila melanogaster as reference at the whole-genome level. The results show that SSR numbers (33 076-560 175/genome) and genome sizes (574.57-1342.21 Mb) are significantly positively correlated (R~= 0.8992, P < 0.01), but the correlation in individual species varies in these mosquito species. In six types of SSR, mono- to trinucleotide SSRs are dominant with cumulative percentages of 95.14%-99.00% and densities of 195.65/Mb-787.51/Mb, whereas tetra- to hexanucleotide SSRs are rare with 1.12%-4.22% and 3.76/Mb-40.23/Mb. The (A/T)n,(AC/GT)n and (AGC/GCT)n are the most frequent motifs in mononucleotide, dinucleotide and trinucleotide SSRs, respectively, and the motif frequencies of tetra- to hexanucleotide SSRs appear to be species-specific. The 10-20 bp length of SSRs are dominant with the number of 11() 561 ± 93 482 and the frequency of 87.25%± 5.73% on average, and the number and frequency decline with the increase oflength. Most SSRs(83.34%± 7.72%) are located in intergenic regions, followed by intron regions (11.59%± 5.59%), exon regions (3.74%± 1.95%), and untranslated regions (1.32%± 1.39%). The mono-, di- and trinucleotide SSRs are the main SSRs in both gene regions (98.55%± 0.85%) and exon regions (99.27%± 0.52%). An average of 42.52% of total genes contains SSRs, and the preference for SSR occurrenee in different gene subcategories are species-specific. The study provides useful insights into the SSR diversity, characteristics and distribution in 23 mosquito species of genomes.

关键词： characterization comparative analyses distribution mosquito simple sequence repeats(SSRs) whole-genome identification

Sialotranscriptome sequencing and analysis of Anopheles sinensis and comparison with Psorophora albipes sialotranscriptome （Diptera： Culicidae）

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Insect Science 2018年第3期25卷 368-378页

作者： Ya-Jie Fang Zhen-Tian Yan Bin Chen chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyCollege of Life SciencesChongqing Normal UniversityChongqing 401331China

Most of adult female mosquitoes secrete saliva to facilitate blood sucking, digestion and nutrition, and mosquito-borne disease prevention. The knowledge of classification and characteristics of sialotranscriptome genes are still quite limited, Anopheles sinensis is a major malaria vector in China and southeast Asian countries. In this study, the An. sinensis sialotranscriptome was sequenced using Illumina sequencing technique with a total of 10 907 unigenes to be obtained and annotated in biological functions and pathways, and 10 470 tmigenes were mapped to An. sinensis reference genome with 70.46% of genes having 90%- 100% genome mapping through bioinformatics analysis. These mapped genes were classified into four categories： housekeeping （6632 genes）, secreted （1177）, protein-coding genes with function-unknown （2646） and transposable element （15）. The housekeeping genes were divided into 27 classes, and the secreted genes were divided into 11 classes and 96 families. The classification, characteristics and evolution of these classes/families of secreted genes are further described and discussed. The comparison of the 1177 secreted genes in An. sinensis in the Anophelinae subfamily with 811 in Psorophora albipes in the Culicinae subfamily show that six classes/subclasses have the gene number more than twice and two classes （uniquely found in anophelines, and Orphan proteins of unique standing） are unique in the former compared with the latter, whereas four classes/subclasses are much expanded and uniquely found in the Aedes class and is unique in the later. The An. sinensis sialotranscriptome sequence data is the most complete in mosquitoes to date, and the analyses provide a comprehensive information frame for further research of mosquito sialotranscriptome.

关键词： Anopheles sinensis comparative analysis gene classification Psorophora albipes sialotranscriptome

AsOBP1 is required for bioallethrin repellency in the malaria vector mosquito Anopheles sinensis

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Insect Science 2024年第5期31卷 1519-1532页

作者： Yongjie Zhang Shulin He Chengyin He Ling Zhou Ou Xu Liang Qiao Bin Chen Yueqing Cao Zhengbo He chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyChongqing Normal UniversityChongqing China College of Life Sciences Chongqing UniversityChongqingChina

The use of insecticides,primarily pyrethroids,is a pivotal strategy for mosquito control ***,the first commercially available volatile pyrethroid,can elicit spatial(i.e.,noncontact)repellency to mosquitoes through the coactivation of ol-factory receptor neurons and sodium ***,the olfactory mechanism of the repellency elicited by bioallethrin in mosquitoes is still ***,we demonstrated the involvement of AsOBP1 in the bioallethrin repellency in Anopheles sinensis,one of the main vectors of vivax malaria in China and other Southeast Asian *** behavioral and electrophysiological analyses in AsOrco-/-mutant found that the spa-tial repellency elicited by bioallethrin depended on the odorant receptor(OR)-mediated olfactory ***,the repellency was reduced in the AsOBPI^(-/-)mutant and a pyrethroid-resistant strain,in which the expression of AsOBPI was significantly ***,recombinant AsOBP1 protein bound to bioallethrin in an in vitro competition *** results indicate that activation of the AsOBP1-mediated olfac-tory pathway is an important component of bioallethrin *** research lays the foundation for further elucidation into the olfactory mechanism of bioallethrin repellency and the behavioral modifications of pyrethroid-resistant mosquitoes.

关键词： AsOBPl bioallethrin olfaction spatial repellency

piggyBac-mediated germline transformation of the malaria mosquito Anopheles sinensis (Diptera:Culicidae)

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Insect Science 2021年第4期28卷 1202-1206页

作者： Jin-Gang Liu Liang Qiao Jia-Jun Zhang Bin Chen Zheng-Bo He chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyCollege of Life SciencesChongqing Normal UniversityChongqingChina

Dear Editor,Anopheles sinensis is the primary vector of vivax malaria in *** the risks posed by ***,many methods have been used to control this vector,most commonly chemical ***,the extensive use of insecticides has subjected mosquitoes to intense selection pressure,resulting in the development of resistance,variations in mosquito behavior.

关键词： malaria behavior. China.

High-efficiency gene editing in Anopheles sinensis using ReMOT control

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Insect Science 2024年第1期31卷 307-312页

作者： Xiao-lin Yang Xia Ling Quan Sun Pin-pin Qiu Kai Xiang Jun-feng Hong Shu-lin He Jie Chen Xin Ding Hai Hu Zheng-bo He Cao Zhou Bin Chen Liang Qiao chongqing key laboratory of vector insects Institute of Entomology and Molecular BiologyCollege of Life SciencesChongqing Normal UniversityChongqingChina Xunjian Life Science&Technology Co.Ltd. ChongqingChina State key laboratory of Resource insects Southwest UniversityChongqingChina

Dear editor,Functional genomics studies of mosquito vectors are crucial for understanding their physiological behavior,pathogen transmission,and evolution,and for providing essential molecular targets for genetic control(Severson&Behura,201l;Alphey,2014;Ruzzante et al.,2019;Hong et al.,2022).The main methods involve clustered regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated protein 9(Cas9)gene editing via embryo microinjection(Criscione et al.,2015;Kistler et al.,2015).

关键词： editor editing injection

From beasts to bytes:Revolutionizing zoological research with artificial intelligence

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Zoological Research 2023年第6期44卷 1115-1131页

作者： Yu-Juan Zhang Zeyu Luo Yawen Sun Junhao Liu Zongqing Chen chongqing key laboratory of vector insects Chongqing Key Laboratory of Animal BiologyCollege of Life ScienceChongqing Normal UniversityChongqing 401331China School of Mathematical Sciences Chongqing Normal UniversityChongqing 401331China chongqing National Center for Applied Mathematics Chongqing Normal UniversityChongqing 401331China

Since the late 2010s,Artificial Intelligence(AI)including machine learning,boosted through deep learning,has boomed as a vital tool to leverage computer vision,natural language processing and speech recognition in revolutionizing zoological *** review provides an overview of the primary tasks,core models,datasets,and applications of AI in zoological research,including animal classification,resource conservation,behavior,development,genetics and evolution,breeding and health,disease models,and ***,we explore the challenges and future directions of integrating AI into this *** on numerous case studies,this review outlines various avenues for incorporating AI into zoological research and underscores its potential to enhance our understanding of the intricate relationships that exist within the animal *** we build a bridge between beast and byte realms,this review serves as a resource for envisioning novel AI applications in zoological research that have not yet been explored.

关键词： Animal science Data extraction Classification model Behavior analysis Biomolecular sequences analysis

The gap-free genome of mulberry elucidates the architecture and evolution of polycentric chromosomes

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Horticulture Research 2023年第7期10卷 221-232页

作者： Bi Ma Honghong Wang Jingchun Liu Lin Chen Xiaoyu Xia Wuqi Wei Zhen Yang Jianglian Yuan Yiwei Luo Ningjia He State key laboratory of Resource insects Southwest UniversityChongqing400715China

Mulberry is a fundamental component of the global sericulture industry,and its positive impact on our health and the environment cannot be ***,the mulberry reference genomes reported previously remained unassembled or unplaced ***,we report the assembly and analysis of the telomere-to-telomere gap-free reference genome of the mulberry species,Morus notabilis,which has emerged as an important reference in mulberry gene function research and genetic *** mulberry gap-free reference genome produced here provides an unprecedented opportunity for us to study the structure and function of *** results revealed that all mulberry centromeric regions share conserved centromeric satellite repeats with different ***,we found that *** is a species with polycentric chromosomes and the only reported polycentric chromosome species up to *** propose a compelling model that explains the formation mechanism of new centromeres and addresses the unsolved scientific question of the chromosome fusion-fission cycle in mulberry *** study sheds light on the functional genomics,chromosome evolution,and genetic improvement of mulberry species.

关键词： evolution free mulberry