A genome‐wide identification and analysis of the homeobox genes in the brown planthopper, <i>Nilaparvata lugens</i> (Hemiptera: Delphacidae)

Fu, Sheng-Jie; Zhang, Jinli; Xu, Hai Jun

doi:10.1002/arch.21833

Cited by 11 publications

(11 citation statements)

References 76 publications

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“…Tubulin has been reported to be involved in cell elongation in flax ( Gavazzi et al, 2017 ). The homeobox family is a large and diverse superclass of genes, many of which may act as transcription factors that play important roles in embryogenesis, tissue differentiation and in animals ( Pearson et al, 2005 ; Di et al, 2015 ; Hench et al, 2015 ; Fu et al, 2021 ) or as master regulators for developmental genes ( Ramanathan et al, 2018 ). Homeobox gene may also be involved in DNA repair during growth ( Feltes, 2019 ).…”

Section: Discussionmentioning

confidence: 99%

Mutations in Growth-Related Genes Induced by EMS Treatment in Scallops

et al. 2022

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Background: The goal of genetic breeding is to select variants with mutations that are related to expected traits, such as fast growth. Artificial induction has been widely used to obtain strains with more mutations for further selection. Ethylmethylsulfone (EMS) is one of the most commonly used chemical mutagens in plant and microorganism breeding. However, the application of EMS mutagenesis in shellfish has not been reported. The aim of this study is to evaluate the potential use of EMS as a mutagen in scallop breeding, especially in characterization of mutations in growth-related genes.Results: Our results indicated that hatching of about 50% of fertilized eggs was blocked by treatment with 20 mM EMS for 3 h and the resulted larvae developed normally into adult stages. We then evaluated the mutagenic effects of EMS by sequencing the genomes of 4 adult scallops from the control group and 12 from the treatment group at 8 months after fertilization. On average, after removing shared types of mutations, there were 1,151,380 ± 258,188 SNPs (Single Nucleotide Polymorphisms) and 229,256 ± 51,714 InDels (insertion-deletion) in each animal in the EMS treatment group, while there were only134841 ± 10,115 SNPs and 42,605 ± 5,136 InDels in the control group. The average mutation rate in the genome of the EMS treatment group (0.0137 ± 0.0013%) was about 9 times that of the control group (0.0015 ± 0.0002%). GO (Gene Ontology) annotation and KEGG (Kyoto Encyclopedia of Genes and Genomes) enrichment analyses revealed that mutations induced by EMS occurred evenly in most biological processes, cellular components and functions, as well in most pathways. However, significant lower percentage of mutations were found in the exonic region, in non-synonymous or Stopgain/Stoploss SNPs and in coding domains, suggesting apparent DNA repair or selection during grow-out stage. Analyses of the growth-related genes with mutations indicated that mutations in MFS (Major Facilitator Superfamily) and Tubulin were only found in the large-sized group (Five largest scallops: Treated-1, Treated-2, Treated-3, Treated-4, and Treated-5) and Homeobox and Socs (Suppressor of cytokine signaling) only in the small group (Two smallest scallops: Treated-11 and Treated-12). These results suggested that these genes may be involved in the regulation of growth in these animals, although further verification is certainly warranted.Conclusion: Treatment of fertilized eggs with 20 mM EMS for 3 h induced 9 times more mutations in scallop genomes. We found that mutations in MFS and Tubulin may be related to fast growth in the large-sized group and those mutations in Homeobox and SOCs may be involved in the slow growth in the small-sized scallops. EMS can be used to accelerate selection of economically important traits in molluscs.

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Section: Discussionmentioning

confidence: 99%

Mutations in Growth-Related Genes Induced by EMS Treatment in Scallops

et al. 2022

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“…In order to assess the developmental profile and examine tissue expression distribution, we searched for the expression of the NlOrco gene in a BPH transcriptomic database (GenBank accession no. PRJNA714229), as described previously 50 . Total RNA was isolated from eggs at 24 h ( n = 400), 48 h ( n = 300) and 120 h ( n = 200), 1 st ‐instar nymphs at 24 and 48 h after eclosion ( n = 200), 2 nd ‐instar nymphs at 24 and 48 h after ecdysis ( n = 200), 3 rd ‐instar nymphs at 24 and 48 h after ecdysis ( n = 200), 4 th ‐instar nymphs at 24 and 48 h after ecdysis ( n = 150), 5 th ‐instar nymphs at 24 and 48 h after ecdysis ( n = 100), and females at 24 and 72 h after eclosion ( n = 50).…”

Section: Methodsmentioning

confidence: 99%

Orcomutagenesis causes deficiencies in olfactory sensitivity and fertility in the migratory brown planthopper,Nilaparvata lugens

Liu

Yan

Chen

et al. 2022

Pest Management Science

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BACKGROUND: The migratory brown planthopper (BPH), Nilaparvata lugens (Hemiptera: Delphacidae), is the most destructive pest affecting rice plants in Asia and feeds exclusively on rice. Studies have investigated the olfactory response of BPHs to the major rice volatile compounds in rice. The insect olfactory co-receptor (Orco) is a crucial component of the olfactory system and is essential for odorant detection. Functional analysis of the Orco gene in BPHs would aid in the identification of their host preference.RESULTS: We identified the BPH Orco homologue (NlOrco) by BLAST searching the BPH transcriptome with the Drosophila Orco gene sequence. Spatiotemporal analysis indicated that NlOrco is first expressed in the later egg stage, and is expressed mainly in the antennae in adult females. A NlOrco-knockout line (NlOrco −/− ) was generated through clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9-mediated mutagenesis. The NlOrco −/− mutants showed no response to rice volatile compounds and consequently no host-plant preference. In addition, NlOrco −/− mutants exhibited extended nymphal duration and impaired fecundity compared with wild-type BPHs. CONCLUSION: Our findings indicated that BPHs exhibit strong olfactory responses to major rice volatile compounds and suggest that NlOrco is required for the maximal fitness of BPHs. Our results may facilitate the identification of potential target genes or chemical compounds for BPH control applications.

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“…To reveal the temporal and spatial expression patterns of each identified BPH AAAP gene, we downloaded the transcriptome sequencing data of 21 groups of BPH from the NCBI SRA database (https://www.ncbi.nlm.nih.gov/sra) (assessed on 15 February, 2021), including eggs at 24 (E-24 h), 48 (E-48 h), and 120 h (E-120 h), first-instar nymph at 24 (1st-24 h) and 48 h (1st-48 h) after eclosion, second-instar nymphs at 24 (2nd-24 h) and 48 h (2nd-48 h) after ecdysis, third-instar nymphs at 24 (3rd-24 h) and 48 h (3rd-48 h) after ecdysis, fourth-instar nymphs at 24 (4th-24 h) and 48 h (4th-48 h) after ecdysis, fifth-instar nymphs at 24 (5th-24 h) and 48 h (5th-48 h) after ecdysis, and females at 24 (F-24 h) and 72 h (F-72 h) after eclosion, as well as six different tissues (head, salivary glands, integument, gut, fat body, and ovaries) from adults at 3 days after eclosion [45]. Kallisto (v0.46.1) software was then used to estimate the transcriptional levels of these putative AAAP genes in examined stages or tissues using the indicator of transcripts per million (TPM) values (Tables S2 and S3).…”

Section: Developmental Stage-and Tissue-specific Expression Profile Analyses Of Aaap Genesmentioning

confidence: 99%

Genome-Wide Analysis of the Amino Acid Auxin Permease (AAAP) Gene Family and Identification of an AAAP Gene Associated with the Growth and Reproduction of the Brown Planthopper, Nilaparvata lugens (Stål)

Yue

Pang

Tian

et al. 2021

Insects

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Amino acids play a vital role in several biological processes in organisms and are mainly acquired through diet by most insects. The amino acid auxin permease (AAAP) transporter family is an important amino acid transporter gene family in insects for the transportation of amino acids into and out of cells across the plasma membrane. Here, we identified 21 putative AAAP family members in the genome of the brown planthopper (BPH), Nilaparvata lugens, a devastating pest that feeds only on the phloem sap of rice plants. Molecular characteristic analysis indicated large variations in protein features and amino acid sequences among the predicted AAAP family members in BPH. Phylogenetic analysis clustered these AAAP transporters into three subgroups, with the members in the same group sharing a similar pattern of conserved motif distribution. Through ortholog gene recognition and spatiotemporal gene expression analysis, the AAAP gene NlAAAP07, which was predicted to regulate BPH larval growth and female fecundity, was identified. RNA interference (RNAi)-mediated suppression of NlAAAP07 significantly postponed the duration of 3rd instar nymphs developing into adults from 7.4 days to 9.0 days, and decreased the oviposition amount and egg hatching rate of females by 30.7% and 11.0%, respectively. Our results provide a foundation for further functional analysis of AAAP transporters in BPH.

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A genome‐wide identification and analysis of the homeobox genes in the brown planthopper, Nilaparvata lugens (Hemiptera: Delphacidae)

Cited by 11 publications

References 76 publications

Mutations in Growth-Related Genes Induced by EMS Treatment in Scallops

Mutations in Growth-Related Genes Induced by EMS Treatment in Scallops

Orcomutagenesis causes deficiencies in olfactory sensitivity and fertility in the migratory brown planthopper,Nilaparvata lugens

Genome-Wide Analysis of the Amino Acid Auxin Permease (AAAP) Gene Family and Identification of an AAAP Gene Associated with the Growth and Reproduction of the Brown Planthopper, Nilaparvata lugens (Stål)

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