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A chromosome-level genome for the flower thrips Frankliniella intonsa.

ABSTRACT: The flower thrips Frankliniella intonsa (Thysanoptera: Thripidae) is a common insect found in flowers of many plants. Sometimes, F. intonsa causes damage to crops through direct feeding and transmission of plant viruses. Here, we assembled a chromosomal level genome of F. intonsa using the Illumina, Oxford Nanopore (ONT), and Hi-C technologies. The assembled genome had a size of 209.09 Mb, with a contig N50 of 997 bp, scaffold N50 of 13.415 Mb, and BUSCO completeness of 92.5%. The assembled contigs were anchored on 15 chromosomes. A set of 14,109 protein-coding genes were annotated in the genome with a BUSCO completeness of 95.0%. The genome contained 491 non-coding RNA and 0.57% of interspersed repeats. This high-quality genome provides a valuable resource for understanding the ecology, genetics, and evolution of F. intonsa, as well as for controlling thrips pests.

SUBMITTER: Song W

PROVIDER: S-EPMC10923943 | biostudies-literature | 2024 Mar

REPOSITORIES: biostudies-literature

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A chromosome-level genome for the flower thrips Frankliniella intonsa.

Song Wei W Wang Jia-Xu JX Cao Li-Jun LJ Chen Jin-Cui JC Bao Wen-Xue WX Chen Min M Wei Shu-Jun SJ

Scientific data 20240308 1

The flower thrips Frankliniella intonsa (Thysanoptera: Thripidae) is a common insect found in flowers of many plants. Sometimes, F. intonsa causes damage to crops through direct feeding and transmission of plant viruses. Here, we assembled a chromosomal level genome of F. intonsa using the Illumina, Oxford Nanopore (ONT), and Hi-C technologies. The assembled genome had a size of 209.09 Mb, with a contig N50 of 997 bp, scaffold N50 of 13.415 Mb, and BUSCO completeness of 92.5%. The assembled cont ...[more]

PMID: 38459039

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Chromosome-level genome assembly of the flower thrips Frankliniella intonsa.

Project description:As an economically important insect pest, the flower thrips Frankliniella intonsa (Trybom) causes great damage to host plants by directly feeding and indirectly transmitting various pathogenic viruses. The lack of a well-assembled genomic resource has hindered our understanding of the genetic basis and evolution of F. intonsa. In this study, we used Oxford Nanopore Technology (ONT) long reads and High-through chromosome conformation capture (Hi-C) linked reads to construct a high-quality reference genome assembly of F. intonsa, with a total size of 225.5 Mb and a contig N50 of 3.37 Mb. By performing the Hi-C analysis, we anchored 91.68% of the contigs into 15 pseudochromosomes. Genomic annotation uncovered 17,581 protein-coding genes and identified 20.09% of the sequences as repeat elements. BUSCO analysis estimated over 98% of genome completeness. Our study is at the first time to report the chromosome-scale genome for the species of the genus Frankliniella. It provides a valuable genomic resource for further biological research and pest management of the thrips.

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A new brood-pollination mutualism between Stellera chamaejasme and flower thrips Frankliniella intonsa.

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Project description:The flower thrips Frankliniella intonsa (Trybom) is one of the most economically important pests in cowpea greenhouses in China. Widespread pesticide resistance of thrips and the negative environmental effects limit the application of pesticides for thrips control. Two commercial cowpea greenhouse experiments were designed to determine the color preference of F. intonsa to colored cards, including white, pink, pale green, light yellow, powder blue, crimson, yellow green, deep sky blue, dark slate blue, dark orange, medium orchid, gold, and black. Clear pieces of plastic were used as the control cards. Additionally, the effects of placement height and orientation (cardinal direction) of the cards were also studied. Both greenhouse trials showed that white cards were significantly more attractive to F. intonsa than the other 13 card colors, followed by deep sky blue cards. White or deep sky blue cards placed low to the ground were found to be most attractive to F. intonsa. Orientation of the colored cards also affected the attractiveness to F. intonsa. The results indicate that white sticky cards were significantly more attractive to F. intonsa than blue cards and therefore can be recommended to monitor F. intonsa population densities and to control them in cowpea greenhouses as part of integrated pest management programs.

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Pantoea Bacteria Isolated from Three Thrips (Frankliniella occidentalis, Frankliniella intonsa, and Thrips tabaci) in Korea and Their Symbiotic Roles in Host Insect Development.

Project description:Gut symbionts play crucial roles in host development by producing nutrients and defending against pathogens. Phloem-feeding insects in particular lack essential nutrients in their diets, and thus, gut symbionts are required for their development. Gram-negative Pantoea spp. are known to be symbiotic to the western flower thrips (Frankliniella occidentalis). However, their bacterial characteristics have not been thoroughly investigated. In this study, we isolated three different bacteria (BFoK1, BFiK1, and BTtK1) from F. occidentalis, F. intonsa, and T. tabaci. The bacterial isolates of all three species contained Pantoea spp. Their 16S rRNA sequences indicated that BFoK1 and BTtK1 were similar to P. agglomerans, while BFiK1 was similar to P. dispersa. These predictions were supported by the biochemical characteristics assessed by fatty acid composition and organic carbon utilization. In the bacterial morphological analysis, BFoK1 and BTtK1 were distinct from BFiK1. All these bacteria were relatively resistant to tetracycline compared to ampicillin and kanamycin, in which BFoK1 and BTtK1 were different from BFiK1. Feeding ampicillin (100,000 ppm) reduced the bacterial density in thrips and retarded the development of F. occidentalis. The addition of BFoK1 bacteria, however, rescued the retarded development. These findings indicate that Pantoea bacteria are symbionts to different species of thrips.

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Project description:The antennal transcriptome analysis was performed for F. occidentalis and F. intonsa, and the putative chemosensory genes (OBPs and CSPs) were identified and compared between the two species

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Onion thrips, Thrips tabaci, have gut bacteria that are closely related to the symbionts of the western flower thrips, Frankliniella occidentalis.

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Bulk development and stringent selection of microsatellite markers in the western flower thrips Frankliniella occidentalis.

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