SRR6130755 - Drosophila suzukii

Basic Information

Run: SRR6130755

Assay Type: WGS

Bioproject: PRJNA412893

Biosample: SAMN07731419

Bytes: 240709265

Center Name: CORNELL UNIVERSITY

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: PAIRED

Library Selection: PCR

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: Ithaca NY

Latitude/Longitude: 42.47 N 76.59 W

Sample Information

Host: Drosophila suzukii

Isolation: RPE.f.1.1

Biosample Model: Metagenome or environmental

Collection Date: 2016-09

Taxonomic Classification

Potential Symbionts

About Potential Symbionts

This table shows potential symbiont identified in the metagenome sample. Matches are scored based on:

Relative abundance in the sample
Species-level matches with known symbionts
Host insect order matches with reference records
Completeness and richness of functional records

Note: only the three highest scoring comparison records were retained for each symbiont species or genus in the sample

Based on our current records database, this section aims to identify potential functional symbionts in this metagenome sample, with scoring based on:

Relative abundance in sample
Species-level matches with known symbionts
Host insect order matches
Functional record completeness

Note: Showing top 3 highest scoring records for each species/genus

Symbiont Name	Record	Host Species	Function	Abundance	Score Score Composition: Symbiont Abundance Species match bonus Host match bonus Function richness Higher scores indicate stronger symbiotic relationship potential
Gluconobacter Host Order Match Host Species Match	RISB1882	Drosophila suzukii Order: Diptera	produce volatile substances that attract female D. suzukii	18.29%	49.5
Gluconobacter Host Order Match Host Species Match	RISB0876	Drosophila suzukii Order: Diptera	None	18.29%	48.3
Wolbachia Host Order Match Host Species Match	RISB0189	Drosophila suzukii Order: Diptera	Wolbachia positively affected female fecundity and offspring mass after a diet shift	1.29%	33.0
Gluconobacter Host Order Match	RISB0016	Aedes aegypti Order: Diptera	Gluconobacter might increase the susceptibility of Ae. aegypti to CHIKV infection.	18.29%	29.9
Xanthomonas	RISB0498	Xylocopa appendiculata Order: Hymenoptera	Xanthomonas strain from Japanese carpenter bee is effective PU-degradable bacterium and is able to use polyacryl-based PU as a nutritional source, as well as other types of PS-PU and PE-PU	24.16%	27.9
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	24.16%	26.1
Acetobacter Host Order Match	RISB1865	Drosophila melanogaster Order: Diptera	The bacterial cells may thus be able to ameliorate the pH of the acidic region, by the release of weak bases.Additionally, the bacteria have a complex relationship with physiological processes which may affect ionic homeostasis in the gut, such as nutrition and immune function	5.74%	20.7
Acetobacter Host Order Match	RISB0961	Drosophila melanogaster Order: Diptera	The exist of Acetobacter had a balancing effect on food ingestion when carbohydrate levels were high in the warmer months, stabilizing fitness components of flies across the year.	5.74%	19.3
Enterococcus faecalis Species-level Match Host Order Match	RISB1411	Bactrocera dorsalis Order: Diptera	female Bactrocera dorsalis fed Enterococcus faecalis and Klebsiella oxytoca enriched diets lived longer but had lower fecundity	1.17%	18.7
Acetobacter Host Order Match	RISB0184	Drosophila melanogaster Order: Diptera	enhancing the brain levels of tyrosine decarboxylase 2 (Tdc2), which is an enzyme that synthesizes octopamine (OA)	5.74%	18.0
Enterobacter ludwigii Species-level Match Host Order Match	RISB1223	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.20%	17.9
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	1.17%	17.2
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	2.12%	17.1
Enterobacter ludwigii Species-level Match Host Order Match	RISB1397	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.20%	16.5
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	1.53%	16.5
Klebsiella sp. P1954 Species-level Match Host Order Match	RISB0917	Aedes aegypti Order: Diptera	could impact larval development (e.g., spermidine)	0.50%	16.5
Comamonas Host Order Match	RISB2021	Bactrocera dorsalis Order: Diptera	This group in the immature stages may be helping the insects to cope with oxidative stress by supplementing available oxygen.	3.86%	16.4
Wolbachia Host Order Match	RISB0766	Aedes fluviatilis Order: Diptera	The presence of Wolbachia pipientis improves energy performance in A. fluviatilis cells; it affects the regulation of key energy sources such as lipids, proteins, and carbohydrates, making the distribution of actin more peripheral and with extensions that come into contact with neighboring cells.	1.29%	16.3
Klebsiella sp. P1954 Species-level Match Host Order Match	RISB1573	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.50%	16.2
Wolbachia Host Order Match	RISB0779	Drosophila melanogaster Order: Diptera	Wolbachia infection affects differential gene expression in Drosophila testis.Genes involved in carbohydrate metabolism, lysosomal degradation, proteolysis, lipid metabolism, and immune response were upregulated in the presence of Wolbachia	1.29%	16.1
Pseudomonas Host Order Match	RISB0425	Anopheles sinensis Order: Diptera	Pseudomonas is the most prevalent microbiota in the Plasmodium-negative groups and protects mosquitoes from the invasion of malaria parasites.A low proportion of the Psuedomonas population of microbiome profiles in the hyperendemic areas, indicating that there might be some factors such as malaria parasites to disturb the balance of microbiota	0.46%	15.5
Serratia symbiotica Species-level Match Host Order Match	RISB0055	Episyrphus balteatus Order: Diptera	None	0.19%	15.2
Brevundimonas sp. Bb-A Species-level Match Host Order Match	RISB1703	Phlebotomus papatasi Order: Diptera	None	0.09%	15.1
Staphylococcus Host Order Match	RISB0427	Anopheles sinensis Order: Diptera	be identified in each part of the hyperendemic area of this study has a potential role to interact with malaria parasites.	1.97%	14.4
Comamonas Host Order Match	RISB1875	Aedes aegypti Order: Diptera	gut microbiome	3.86%	14.1
Pseudomonas Host Order Match	RISB2061	Scaptomyza nigrita Order: Diptera	increased S. nigrita herbivory in bittercress，adult S. nigrita feeding was promoted by a P. fluorescens group strain, while larval feeding was promoted by a P. syringae group strain	0.46%	14.1
Comamonas Host Order Match	RISB2020	Bactrocera dorsalis Order: Diptera	None	3.86%	13.9
Pseudomonas Host Order Match	RISB1512	Delia lupini Order: Diptera	Antibiotic-treated larvae suffered growth retardation on a diet containing plant extract or swainsonine. Gut bacteria showed toxin-degradation activities in vitro	0.46%	13.7
Methylobacterium Host Order Match	RISB1440	Lutzomyia evansi Order: Diptera	Methylobacterium can be important in several physiological and metabolic processes in Lu. evansi, which suggests that interactions could occur with Leishmania parasite	0.19%	13.5
Sodalis Host Order Match	RISB2256	Glossina palpalis Order: Diptera	flies harbouring this symbiont have three times greater probability of being infected by trypanosomes than flies without the symbiont.	0.16%	12.8
Staphylococcus Host Order Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	1.97%	12.3
Sodalis Host Order Match	RISB2471	Glossina morsitans Order: Diptera	retains a thiamine ABC transporter (tbpAthiPQ) believed to salvage thiamine	0.16%	11.7
Leuconostoc sp. C2 Species-level Match	RISB0812	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-18 oxidation pathway	5.19%	11.6
Sodalis Host Order Match	RISB2531	Glossina spp. Order: Diptera	quorum sensing primes the oxidative stress response of endosymbiont	0.16%	11.5
Rickettsia Host Order Match	RISB1273	Culicoides impunctatus Order: Diptera	possible symbiont-virus interactions	0.54%	11.3
Escherichia coli Species-level Match	RISB1339	Manduca sexta Order: Lepidoptera	modulate immunity-related gene expression in the infected F0 larvae, and also in their offspring, triggered immune responses in the infected host associated with shifts in both DNA methylation and histone acetylation	1.53%	10.9
Chryseobacterium Host Order Match	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.11%	10.7
Rickettsia Host Order Match	RISB0588	Culicoides impunctatus Order: Diptera	None	0.54%	10.5
Chryseobacterium Host Order Match	RISB1874	Aedes aegypti Order: Diptera	gut microbiome	0.11%	10.4
Variovorax Host Order Match	RISB1712	Phlebotomus papatasi Order: Diptera	None	0.22%	10.2
Serratia symbiotica Species-level Match	RISB0576	Acyrthosiphon pisum Order: Hemiptera	process of regression from winged to wingless morph was inhibited by Serratia symbiotica. The existence of the symbiont did not affect the body mass and fecundity of adult aphids, but it increased the body weight of nymphs and temporally increased the quantity of a primary symbiont, Buchnera aphidicola	0.19%	10.2
Chryseobacterium Host Order Match	RISB0015	Aedes aegypti Order: Diptera	None	0.11%	10.1
Serratia symbiotica Species-level Match	RISB0179	Acyrthosiphon pisum Order: Hemiptera	harboring Serratia improved host aphid growth and fecundity but reduced longevity. Serratia defends aphids against P. japonica by impeding the predator's development and predation capacity, and modulating its foraging behavior	0.19%	9.7
Clostridium sp. DL-VIII Species-level Match	RISB2301	Pyrrhocoris apterus Order: Hemiptera	could play an important role for the insect by degrading complex dietary components, providing nutrient supplementation, or detoxifying noxious chemicals (e.g. cyclopropenoic fatty acids or gossypol) in the diet	0.04%	9.3
Escherichia coli Species-level Match	RISB0128	Tribolium castaneum Order: Coleoptera	may produce 4,8-dimethyldecanal (DMD) production that is strongly associated with attraction to females and host pheromone communication	1.53%	9.3
Streptomyces sp. ICC4 Species-level Match	RISB0943	Polybia plebeja Order: Hymenoptera	this bacterium produces antimicrobial compounds that are active against Hirsutella citriformis, a natural fungal enemy of its host, and the human pathogens Staphylococcus aureus and Candida albicans	0.10%	9.1
Enterobacter ludwigii Species-level Match	RISB1543	Helicoverpa zea Order: Lepidoptera	two immunity-related genes glucose oxidase (GOX) and lysozyme (LYZ) were more highly expressed in both salivary glands and midguts compared with MgCl2 solution-treated caterpillars	0.20%	8.8
Streptomyces sp. ICC4 Species-level Match	RISB2334	Sirex noctilio Order: Hymenoptera	degrading woody substrates and that such degradation may assist in nutrient acquisition by S. noctilio, thus contributing to its ability to be established in forested habitats worldwide	0.10%	8.8
Enterococcus faecalis Species-level Match	RISB0497	Cryptolestes ferrugineus Order: Coleoptera	bacteria can degrade malathion, pirimiphos-methyl, and deltamethrin and utilize these insecticides as the carbon source in vitro.	1.17%	8.8
Lactobacillus sp. PV034 Species-level Match	RISB0292	Lymantria dispar asiatica Order: Lepidoptera	Beauveria bassiana infection-based assays showed that the mortality of non-axenic L. dispar asiatica larvae was significantly higher than that of axenic larvae at 72 h.	0.06%	8.4
Streptomyces sp. ICC4 Species-level Match	RISB1134	mud dauber wasp Order: Hymenoptera	secondary metabolites derived from a Streptomyces sp. displayed significant inhibitory activity against hexokinase II	0.10%	7.4
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	2.13%	7.1
Staphylococcus	RISB0945	Callosobruchus maculatus Order: Coleoptera	The strain encodes complete biosynthetic pathways for the production of B vitamins and amino acids, including tyrosine; A carbohydrate-active enzyme search revealed that the genome codes for a number of digestive enzymes, reflecting the nutritional ecology of C. maculatus	1.97%	7.0
Rickettsia	RISB0940	Bemisia tabaci Order: Hemiptera	Rickettsia can be transmitted into plants via whitefly feeding and remain alive within the cotton plants for at least 2 weeks.Then the persistence of Rickettsia and its induced defense responses in cotton plants can increase the fitness of whitefly and, by this, Rickettsia may increase its infection and spread within its whitefly host	0.54%	5.5
Burkholderia	RISB1172	Lagria villosa Order: Coleoptera	process a cryptic gene cluster that codes for the biosynthesis of a novel antifungal polyketide with a glutarimide pharmacophore, which led to the discovery of the gladiofungins as previously-overlooked components of the antimicrobial armory of the beetle symbiont	0.41%	5.4
Zymomonas mobilis Species-level Match	RISB1326	Vespa mandarinia Order: Hymenoptera	None	0.35%	5.4
Burkholderia	RISB1729	Lagria hirta Order: Coleoptera	the symbionts inhibit the growth of antagonistic fungi on the eggs of the insect host, indicating that the Lagria-associated Burkholderia have evolved from plant pathogenic ancestors into insect defensive mutualists	0.41%	4.7
Burkholderia	RISB0402	Riptortus pedestris Order: Hemiptera	symbiont colonization induces the development of the midgut crypts via finely regulating the enterocyte cell cycles, enabling it to stably and abundantly colonize the generated spacious crypts of the bean bug host	0.41%	4.7
Nocardia	RISB0947	Acromyrmex Order: Hymenoptera	Pseudonocardia in the Acromyrmex leaf-cutter ants as a protective partner against the entomopathogenic fungus Metarhizium	0.08%	2.5
Nocardia	RISB1218	Mycocepurus smithii Order: Hymenoptera	produce secondary metabolites with antibiotic activity that protects the fungus garden against pathogens	0.08%	2.2
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.13%	1.9
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.13%	1.8
Variovorax	RISB2153	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.22%	1.5
Nostoc	RISB0812	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-18 oxidation pathway	0.09%	1.5
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.16%	1.2
Methylobacterium	RISB2053	Atractomorpha sinensis Order: Orthoptera	associated with cellulolytic enzymes	0.19%	0.9
Corynebacterium	RISB2360	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.13%	0.9
Methylobacterium	RISB2340	Saturniidae Order: Lepidoptera	Nitrogen fixation	0.19%	0.5
Fructobacillus	RISB0638	Formica Order: Hymenoptera	None	0.30%	0.3
Ralstonia	RISB0243	Spodoptera frugiperda Order: Lepidoptera	None	0.09%	0.1
Paraburkholderia	RISB0125	Physopelta gutta Order: Hemiptera	None	0.06%	0.1