SRR6130750 - Drosophila suzukii

Basic Information

Run: SRR6130750

Assay Type: WGS

Bioproject: PRJNA412893

Biosample: SAMN07731422

Bytes: 109803177

Center Name: CORNELL UNIVERSITY

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: PAIRED

Library Selection: PCR

Platform: ILLUMINA

Quality Control Information

Filter Percentage: 0.2934

QC Average Length: 278

Retained Reads: -

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.2.1

Biosample Model: Metagenome or environmental

Collection Date: 2016-11

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
Wolbachia Host Order Match Host Species Match	RISB0189	Drosophila suzukii Order: Diptera	Wolbachia positively affected female fecundity and offspring mass after a diet shift	2.16%	33.8
Pseudomonas aeruginosa Species-level Match	RISB0364	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	16.79%	23.6
Bacillus sp. ZHX3 Species-level Match Host Order Match	RISB0791	Anopheles barbirostris Order: Diptera	without this midgut flora showed delayed development to become adult	2.84%	19.2
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	0.77%	18.5
Morganella morganii Species-level Match Host Order Match	RISB0772	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.06%	18.3
Morganella morganii Species-level Match Host Order Match	RISB0008	Phormia regina Order: Diptera	deterred oviposition by female stable flies; The flies' oviposition decisions appear to be guided by bacteria-derived semiochemicals as the bacteria	0.06%	18.0
Serratia plymuthica Species-level Match Host Order Match	RISB1225	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.27%	18.0
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	0.11%	17.7
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	2.63%	17.6
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	2.50%	17.5
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.	2.16%	17.2
Enterobacter ludwigii Species-level Match Host Order Match	RISB1397	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.77%	17.1
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	2.16%	17.0
Klebsiella sp. P1954 Species-level Match Host Order Match	RISB0917	Aedes aegypti Order: Diptera	could impact larval development (e.g., spermidine)	0.95%	17.0
Morganella morganii Species-level Match Host Order Match	RISB0611	Bactrocera dorsalis Order: Diptera	may hydrolysing nitrogenous waste and providing metabolizable nitrogen for B. dorsalis	0.06%	16.8
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.	4.23%	16.7
Klebsiella sp. P1954 Species-level Match Host Order Match	RISB1573	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.95%	16.7
Serratia plymuthica Species-level Match Host Order Match	RISB1399	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.27%	16.6
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	1.27%	16.3
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	0.11%	16.1
Bacillus thuringiensis Species-level Match Host Order Match	RISB0820	Simulium tani Order: Diptera	show resistance to some antibiotics	0.34%	16.0
Bacillus cereus Species-level Match Host Order Match	RISB1872	Aedes aegypti Order: Diptera	gut microbiome	0.40%	15.7
Serratia plymuthica Species-level Match Host Order Match	RISB0203	Belgica antarctica Order: Diptera	None	0.27%	15.3
Enterobacter hormaechei Species-level Match Host Order Match	RISB1331	Zeugodacus cucurbitae Order: Diptera	None	0.18%	15.2
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.	1.27%	14.9
Comamonas Host Order Match	RISB1875	Aedes aegypti Order: Diptera	gut microbiome	4.23%	14.5
Comamonas Host Order Match	RISB2020	Bactrocera dorsalis Order: Diptera	None	4.23%	14.2
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	0.47%	13.8
Citrobacter Host Order Match	RISB1503	Bactrocera dorsalis Order: Diptera	Pesticide-degrading bacteria were frequently detected from pesticide-resistant insects. Susceptible insects became resistant after inoculation of the pesticide-degrading symbiont	0.07%	13.6
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)	1.27%	13.6
Acinetobacter Host Order Match	RISB0768	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.22%	13.5
Citrobacter Host Order Match	RISB0192	Hermetia illucens Order: Diptera	can directly promote the expression of two gene families related to intestinal protein metabolism: Hitryp serine protease trypsin family and Himtp metallopeptidase family	0.07%	13.5
Acinetobacter Host Order Match	RISB0421	Anopheles sinensis Order: Diptera	Acinetobacter species increase the resistance of An. gambiae to Plasmodium development partly by the induction of anti-Plasmodium factors in Imd pathway	0.22%	13.3
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.	0.52%	13.0
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.	0.20%	12.9
Citrobacter Host Order Match	RISB1221	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.07%	12.8
Pseudomonas sp. MPDS Species-level Match	RISB1622	Dendroctonus valens Order: Coleoptera	volatiles from predominant bacteria regulate the consumption sequence of carbon sources d-pinitol and d-glucose in the fungal symbiont Leptographium procerum, and appear to alleviate the antagonistic effect from the fungus against RTB larvae	2.86%	12.7
Aeromonas Host Order Match	RISB2086	Aedes aegypti Order: Diptera	axenic larvae cannot develop	1.48%	12.0
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	2.50%	11.8
Sodalis Host Order Match	RISB2471	Glossina morsitans Order: Diptera	retains a thiamine ABC transporter (tbpAthiPQ) believed to salvage thiamine	0.20%	11.7
Pseudomonas sp. Q1-7 Species-level Match	RISB1622	Dendroctonus valens Order: Coleoptera	volatiles from predominant bacteria regulate the consumption sequence of carbon sources d-pinitol and d-glucose in the fungal symbiont Leptographium procerum, and appear to alleviate the antagonistic effect from the fungus against RTB larvae	1.77%	11.6
Sodalis Host Order Match	RISB2531	Glossina spp. Order: Diptera	quorum sensing primes the oxidative stress response of endosymbiont	0.20%	11.5
Rickettsia Host Order Match	RISB1273	Culicoides impunctatus Order: Diptera	possible symbiont-virus interactions	0.16%	10.9
Staphylococcus Host Order Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	0.52%	10.8
Acinetobacter Host Order Match	RISB2083	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.22%	10.8
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	2.50%	10.2
Variovorax Host Order Match	RISB1712	Phlebotomus papatasi Order: Diptera	None	0.21%	10.2
Rickettsia Host Order Match	RISB0588	Culicoides impunctatus Order: Diptera	None	0.16%	10.2
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	2.96%	8.0
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.	0.11%	7.7
Leuconostoc	RISB0812	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-18 oxidation pathway	5.82%	7.2
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	0.52%	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	0.25%	5.3
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	0.16%	5.2
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	0.25%	4.6
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	0.25%	4.5
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	1.93%	4.0
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	0.16%	3.9
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	1.93%	3.6
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	1.93%	3.1
Yersinia	RISB0492	Cimex hemipterus Order: Hemiptera	the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides	0.41%	2.8
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.37%	2.7
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.37%	2.5
Bacteroides	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	0.37%	2.4
Aeromonas	RISB2456	Bombyx mori Order: Lepidoptera	able to utilize the CMcellulose and xylan	1.48%	2.3
Sphingomonas	RISB0420	Aphis gossypii Order: Hemiptera	Sphingomonas could mediate A. gossypii resistance to imidacloprid by hydroxylation and nitroreduction	0.10%	2.1
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.33%	2.1
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	0.16%	2.1
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.33%	2.0
Sphingomonas	RISB1307	Aphis gossypii Order: Hemiptera	have been previously described in associations with phloem-feeding insects, in low abundances	0.10%	2.0
Aeromonas	RISB1145	Tenebrio molitor Order: Coleoptera	degrading plastics	1.48%	1.8
Sphingomonas	RISB0134	Spodoptera frugiperda Order: Lepidoptera	provide a protective effect to against chlorantraniliprole stress to S. frugiperda	0.10%	1.7
Variovorax	RISB2153	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.21%	1.5
Methylobacterium	RISB2053	Atractomorpha sinensis Order: Orthoptera	associated with cellulolytic enzymes	0.47%	1.2
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.07%	1.1
Corynebacterium	RISB2360	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.33%	1.1
Methylobacterium	RISB2340	Saturniidae Order: Lepidoptera	Nitrogen fixation	0.47%	0.8
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.18%	0.5
Yersinia	RISB0407	Anaphes nitens Order: Hymenoptera	None	0.41%	0.4