SRR6130735 - Drosophila suzukii

Basic Information

Run: SRR6130735

Assay Type: WGS

Bioproject: PRJNA412893

Biosample: SAMN07731410

Bytes: 87028350

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: 42.52 N 77.00 W

Sample Information

Host: Drosophila suzukii

Isolation: lo.m.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
Lactococcus lactis Species-level Match Host Order Match	RISB0131	Ceratitis capitata Order: Diptera	The intestinal microbiota structure was significantly influenced by the probiotic treatment while still maintaining a stable core dominant community of Enterobacteriacea. The colony with these microbiome had the most improved potential functions in terms of gut microbes as well as the carbohydrates active enzymes most improved potential functions.	14.70%	34.7
Wolbachia Host Order Match Host Species Match	RISB0189	Drosophila suzukii Order: Diptera	Wolbachia positively affected female fecundity and offspring mass after a diet shift	1.04%	32.7
Lactococcus lactis Species-level Match Host Order Match	RISB0113	Bactrocera dorsalis Order: Diptera	increase the resistance of B. dorsalis to β-cypermethrin by regulating cytochrome P450 (P450) enzymes and α-glutathione S-transferase (GST) activities	14.70%	32.7
Gluconobacter Host Order Match Host Species Match	RISB1882	Drosophila suzukii Order: Diptera	produce volatile substances that attract female D. suzukii	0.51%	31.7
Gluconobacter Host Order Match Host Species Match	RISB0876	Drosophila suzukii Order: Diptera	None	0.51%	30.5
Lactococcus lactis Species-level Match Host Order Match	RISB1167	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	14.70%	30.3
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	9.03%	24.0
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.	9.03%	22.6
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)	9.03%	21.3
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	4.78%	19.8
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	3.90%	18.9
Arthrobacter sp. MMS18-M83 Species-level Match Host Order Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.20%	18.5
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	0.70%	18.2
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	0.49%	18.2
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	0.46%	18.2
Serratia sp. CMO1 Species-level Match Host Order Match	RISB1516	Anopheles stephensi Order: Diptera	produce lipodepsipeptides, stephensiolides A-K, that have antibiotic activity and facilitate bacterial surface motility.	0.37%	17.8
Enterobacter ludwigii Species-level Match Host Order Match	RISB1397	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.49%	16.8
Serratia plymuthica Species-level Match Host Order Match	RISB1399	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.46%	16.8
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	0.70%	16.7
Rhodococcus Host Order Match	RISB0775	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	2.91%	16.2
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.	1.04%	16.0
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	1.04%	15.8
Bacillus Host Order Match	RISB1866	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	0.24%	15.2
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	4.78%	14.1
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	0.69%	14.0
Klebsiella pneumoniae Species-level Match	RISB2185	Scirpophaga incertulas Order: Lepidoptera	The ability of these arthropods to feed on wood, foliage and detritus is likely to involve catalysis by different types of cellulases/hemicellulases that are secreted by gut microbiota to digest the structural and recalcitrant lignocellulosic residues in their foods.	3.90%	13.9
Stenotrophomonas Host Order Match	RISB1227	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.94%	13.6
Bacillus Host Order Match	RISB0774	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.24%	13.5
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.	0.81%	13.3
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.	0.14%	12.8
Rickettsia Host Order Match	RISB1273	Culicoides impunctatus Order: Diptera	possible symbiont-virus interactions	1.94%	12.7
Bacillus Host Order Match	RISB0185	Drosophila melanogaster Order: Diptera	enhancing the brain levels of tyrosine decarboxylase 2 (Tdc2), which is an enzyme that synthesizes octopamine (OA)	0.24%	12.5
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	4.78%	12.5
Stenotrophomonas Host Order Match	RISB1401	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.94%	12.3
Gluconobacter Host Order Match	RISB0016	Aedes aegypti Order: Diptera	Gluconobacter might increase the susceptibility of Ae. aegypti to CHIKV infection.	0.51%	12.2
Rickettsia Host Order Match	RISB0588	Culicoides impunctatus Order: Diptera	None	1.94%	11.9
Sodalis Host Order Match	RISB2471	Glossina morsitans Order: Diptera	retains a thiamine ABC transporter (tbpAthiPQ) believed to salvage thiamine	0.14%	11.6
Sodalis Host Order Match	RISB2531	Glossina spp. Order: Diptera	quorum sensing primes the oxidative stress response of endosymbiont	0.14%	11.5
Yersinia	RISB0492	Cimex hemipterus Order: Hemiptera	the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides	8.80%	11.2
Staphylococcus Host Order Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	0.81%	11.1
Pectobacterium Host Order Match	RISB1772	Muscidae Order: Diptera	None	1.00%	11.0
Stenotrophomonas Host Order Match	RISB1710	Phlebotomus papatasi Order: Diptera	None	0.94%	10.9
Aeromonas Host Order Match	RISB2086	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.12%	10.7
Pseudomonas sp. HR96 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	0.28%	10.1
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	3.90%	9.9
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	0.49%	9.1
Pseudomonas aeruginosa Species-level Match	RISB0364	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	2.12%	8.9
Yersinia	RISB0407	Anaphes nitens Order: Hymenoptera	None	8.80%	8.8
Pseudomonas sp. HR96 Species-level Match	RISB2224	Leptinotarsa decemlineata Order: Coleoptera	Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)	0.28%	8.6
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	3.47%	8.5
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.	0.70%	8.3
Zymobacter palmae Species-level Match	RISB1324	Vespa mandarinia Order: Hymenoptera	None	2.34%	7.3
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	1.94%	6.9
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	0.81%	5.8
Zymomonas mobilis Species-level Match	RISB1326	Vespa mandarinia Order: Hymenoptera	None	0.33%	5.3
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	0.27%	5.3
Rhodococcus	RISB0430	Rhodnius prolixus Order: Hemiptera	Rhodnius prolixus harbouring R. rhodnii developed faster, had higher survival, and laid more eggs	2.91%	4.9
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	0.27%	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	0.27%	4.5
Pectobacterium	RISB1889	Pseudococcus longispinus Order: Hemiptera	a nested symbiotic arrangement, where one bacterium lives inside another bacterium,occurred in building the mosaic metabolic pathways seen in mitochondria and plastids	1.00%	4.3
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	0.27%	4.0
Rhodococcus	RISB1087	Rhodnius prolixus Order: Hemiptera	supply enzymatic biosynthesis of B-complex vitamins	2.91%	3.9
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	1.38%	3.7
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	1.38%	3.5
Bacteroides	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	1.38%	3.4
Rhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	1.37%	2.9
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	0.65%	2.7
Lonsdalea	RISB1321	Vespa mandarinia Order: Hymenoptera	None	2.54%	2.5
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	0.65%	2.3
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	0.27%	2.2
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.29%	2.1
Pectobacterium	RISB0798	Pseudoregma bambucicola Order: Hemiptera	may help P. bambucicola feed on the stalks of bamboo	1.00%	2.0
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.29%	2.0
Duganella	RISB2152	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.59%	1.9
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	0.65%	1.9
Dickeya	RISB1086	Rhodnius prolixus Order: Hemiptera	supply enzymatic biosynthesis of B-complex vitamins	0.61%	1.6
Methylobacterium	RISB2053	Atractomorpha sinensis Order: Orthoptera	associated with cellulolytic enzymes	0.69%	1.4
Nocardioides	RISB1914	Hyles euphorbiae Order: Lepidoptera	able to degrade alkaloids and/or latex	0.56%	1.3
Corynebacterium	RISB2360	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.29%	1.1
Methylobacterium	RISB2340	Saturniidae Order: Lepidoptera	Nitrogen fixation	0.69%	1.0
Aeromonas	RISB2456	Bombyx mori Order: Lepidoptera	able to utilize the CMcellulose and xylan	0.12%	0.9
Aeromonas	RISB1145	Tenebrio molitor Order: Coleoptera	degrading plastics	0.12%	0.5
Gibbsiella	RISB1320	Vespa mandarinia Order: Hymenoptera	None	0.29%	0.3