SRR6147586 - Cassida rubiginosa

Basic Information

Run: SRR6147586

Assay Type: WGS

Bioproject: PRJNA413589

Biosample: SAMN07758497

Bytes: 860613549

Center Name: UNIVERSITY OF LUXEMBOURG

Sequencing Information

Instrument: Illumina HiSeq 2500

Library Layout: PAIRED

Library Selection: RANDOM

Platform: ILLUMINA

Geographic Information

Country: New Zealand

Continent: Oceania

Location Name: New Zealand

Latitude/Longitude: 40.9006 S 174.8860 E

Sample Information

Host: Cassida rubiginosa

Isolation: -

Biosample Model: Metagenome or environmental

Collection Date: 2016

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
Escherichia coli Species-level Match Host Order 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	6.00%	23.7
Buchnera aphidicola Species-level Match	RISB0236	Acyrthosiphon pisum Order: Hemiptera	Buchnera the nutritional endosymbiont of A. pisum is located inside of bacteriocytes and requires aspartate from the aphid host, because it cannot make it de novo. Further Buchnera needs aspartate for the biosynthesis of the essential amino acids lysine and threonine, which the aphid and Buchnera require for survival	11.84%	21.8
Buchnera aphidicola Species-level Match	RISB2485	Macrosiphum euphorbiae Order: Hemiptera	symbiont expression patterns differ between aphid clones with differing levels of virulence, and are influenced by the aphids' host plant. Potentially, symbionts may contribute to differential adaptation of aphids to host plant resistance	11.84%	21.6
Buchnera aphidicola Species-level Match	RISB0685	Acyrthosiphon pisum Order: Hemiptera	It supplies the host with vitamins and essential amino acids, such as arginine and methionine that aphids cannot synthesize or derive insufficiently from their diet, the phloem sap of plants	11.84%	20.6
Pseudomonas sp. CIP-10 Species-level Match Host Order 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	0.41%	20.2
Pseudomonas sp. CIP-10 Species-level Match Host Order 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)	0.41%	18.8
Proteus vulgaris Species-level Match Host Order Match	RISB0001	Leptinotarsa decemlineata Order: Coleoptera	produces toxic hydrogen cyanide (HCN) and a mandelonitrile-producing cyanoglucoside, amygdalin, which protect the insect from predation	0.13%	17.8
Bacillus cereus Species-level Match Host Order Match	RISB1056	Oryctes rhinoceros Order: Coleoptera	provide symbiotic digestive functions to Oryctes	1.48%	17.4
Bacillus cereus Species-level Match Host Order Match	RISB1778	Lissorhoptrus oryzophilus Order: Coleoptera	might be promising paratransgenesis candidates	1.48%	17.4
Streptomyces sp. T12 Species-level Match Host Order Match	RISB0777	Copris tripartitus Order: Coleoptera	contribute brood ball hygiene by inhibiting fungal parasites in the environment	0.31%	16.9
Pseudomonas sp. CIP-10 Species-level Match Host Order Match	RISB0815	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-15 oxidation pathway	0.41%	16.8
Wolbachia pipientis Species-level Match Host Order Match	RISB2621	Tribolium confusum Order: Coleoptera	induces cytoplasmic incompatibility	0.94%	16.6
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB0139	Tenebrio molitor Order: Coleoptera	correlated with polyvinyl chloride PVC degradation	0.31%	16.3
Staphylococcus Host Order Match	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	1.19%	16.2
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	6.00%	15.3
Spiroplasma Host Order Match	RISB0343	Harmonia axyridis Order: Coleoptera	female ladybirds co-infected with Hesperomyces harmoniae and Spiroplasma had a significantly lower fecundity and hatchability compared to females with only one or no symbiont	0.21%	13.7
Staphylococcus Host Order Match	RISB0946	Callosobruchus maculatus Order: Coleoptera	The strain encodes complete biosynthetic pathways for the production of B vitamins and amino acids, including tyrosine	1.19%	13.6
Rickettsia Host Order Match	RISB1279	Ips sp. Order: Coleoptera	inducing cytoplasmic incompatibility, resulting in reproductive distortions and hence	1.32%	13.0
Rickettsia Host Order Match	RISB0970	Oulema melanopus Order: Coleoptera	may be associated with insect reproduction and maturation of their sexual organs	1.32%	12.9
Rickettsia Host Order Match	RISB1954	Sitona obsoletus Order: Coleoptera	potential defensive properties against he parasitoid Microctonus aethiopoides	1.32%	12.9
Spiroplasma Host Order Match	RISB1483	Brachinus elongatulus Order: Coleoptera	may manipulate host reproduction (e.g., cause male-killing) or provide resistance to nematodes and/or parasitoid wasps	0.21%	12.6
Candidatus Nardonella Host Order Match	RISB2449	Euscepes postfasciatus Order: Coleoptera	endosymbiont is involved in normal growth and development of the host weevil	0.91%	12.4
Candidatus Nardonella Host Order Match	RISB1931	Lissorhoptrus oryzophilus Order: Coleoptera	might be not playing critical roles in the reproduction of L. oryzophilus	0.91%	12.4
Bacteroides Host Order Match	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	0.10%	12.1
Micrococcus Host Order Match	RISB2277	Leptinotarsa decemlineata Order: Coleoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	0.23%	12.1
Bradyrhizobium Host Order Match	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	0.27%	11.8
Escherichia coli Species-level Match	RISB2120	Galleria mellonella Order: Lepidoptera	mediate trans-generational immune priming	6.00%	11.8
Candidatus Nardonella Host Order Match	RISB1668	Multiple species Order: Coleoptera	Possibly tyrosine precursor provisioning	0.91%	11.7
Vibrio Host Order Match	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.35%	11.7
Bacillus cereus Species-level Match	RISB2161	Termitidae Order: Blattodea	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.	1.48%	11.5
Staphylococcus Host Order Match	RISB1070	Oryctes rhinoceros Order: Coleoptera	gut microbe	1.19%	11.4
Halomonas Host Order Match	RISB1808	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.09%	11.4
Wolbachia pipientis Species-level 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.	0.94%	10.9
Spiroplasma Host Order Match	RISB0250	Tenebrio molitor Order: Coleoptera	associated with PE biodegradation	0.21%	10.9
Candidatus Pantoea carbekii Species-level Match	RISB1046	Halyomorpha halys Order: Hemiptera	provides its host with essential nutrients, vitamins, cofactors and protection of the most vulnerable stages of early development (1st nymphal stages). Pantoea carbekii is highly stress tolerant, especially once secreted to cover the eggs, by its unique biofilm-formation properties, securing host offspring survival	0.18%	10.2
Stenotrophomonas maltophilia Species-level Match	RISB1122	Bombyx mori Order: Lepidoptera	facilitate host resistance against organophosphate insecticides, provides essential amino acids that increase host fitness and allow the larvae to better tolerate the toxic effects of the insecticide.	0.31%	9.3
Streptomyces sp. T12 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	0.31%	9.3
Candidatus Carsonella ruddii Species-level Match	RISB0394	Cacopsylla pyricola Order: Hemiptera	Carsonella produces most essential amino acids (EAAs) for C. pyricola, Psyllophila complements the genes missing in Carsonella for the tryptophan pathway and synthesizes some vitamins and carotenoids	0.17%	9.2
Mammaliicoccus sciuri Species-level Match	RISB0075	Bombyx mori Order: Lepidoptera	could produce a secreted chitinolytic lysozyme (termed Msp1) to damage fungal cell walls，completely inhibit the spore germination of fungal entomopathogens Metarhizium robertsii and Beauveria bassiana	0.14%	9.1
Candidatus Schneideria nysicola Species-level Match	RISB0872	Nysius sp. Order: Hemiptera	synthesize four B vitamins(Pan, pantothenate;Fol, folate; Rib, riboflavin; Pyr, pyridoxine) and five Essential Amino Acids(Ile, isoleucine; Val, valine; Lys, lysine; Thr, threonine; Phe, phenylalanine)	0.07%	9.1
Streptomyces sp. T12 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	0.31%	9.0
Candidatus Portiera aleyrodidarum Species-level Match	RISB1193	Bemisia tabaci Order: Hemiptera	synthesizing essential amino acid (e.g. tryptophan, leucine and L-Isoleucine), Bemisia tabaci provides vital nutritional support for growth, development and reproduction	0.19%	8.6
Acinetobacter guillouiae Species-level Match	RISB0768	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.21%	8.5
Wolbachia pipientis Species-level Match	RISB1515	Drosophila melanogaster Order: Diptera	increases the recombination rate observed across two genomic intervals and increases the efficacy of natural selection in hosts	0.94%	8.5
Candidatus Mikella endobia Species-level Match	RISB1887	Paracoccus marginatus 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	0.12%	8.5
Blattabacterium cuenoti Species-level Match	RISB0133	Panesthiinae Order: Blattodea	enables hosts to subsist on a nutrient-poor diet; endosymbiont genome erosions are associated with repeated host transitions to an underground life	0.42%	8.4
Wigglesworthia glossinidia Species-level Match	RISB0369	Glossina morsitans Order: Diptera	symbiont-derived factors, likely B vitamins, are critical for the proper function of both lipid biosynthesis and lipolysis to maintain tsetse fly fecundity	0.10%	8.2
Stenotrophomonas maltophilia Species-level Match	RISB1227	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.31%	8.0
Candidatus Tachikawaea gelatinosa Species-level Match	RISB2112	Urostylis westwoodii Order: Hemiptera	the symbiont localizes to a specialized midgut region and supplies essential amino acids deficient in the host's diet	0.23%	7.6
Candidatus Portiera aleyrodidarum Species-level Match	RISB2289	Bemisia tabaci Order: Hemiptera	encoding the capability to synthetize, or participate in the synthesis of, several amino acids and carotenoids,	0.19%	7.4
Candidatus Portiera aleyrodidarum Species-level Match	RISB1973	Bemisia tabaci Order: Hemiptera	a primary symbiont, which compensates for the deficient nutritional composition of its food sources	0.19%	7.2
Wigglesworthia glossinidia Species-level Match	RISB1786	Glossina morsitans Order: Diptera	Synthesis of a large number of B vitamins, to supplement the host nutritional deficiencies of the diet	0.10%	7.1
Candidatus Ishikawella capsulata Species-level Match	RISB2368	Megacopta punctatissima Order: Hemiptera	Microbe compensates for nutritional deficiency of host diet by supplying essential amino acids	0.26%	7.1
Candidatus Westeberhardia cardiocondylae Species-level Match	RISB1794	Cardiocondyla obscurior Order: Hymenoptera	Contributes to cuticle formation and is responsible for host invasive success	0.06%	6.6
Wigglesworthia glossinidia Species-level Match	RISB2577	Glossina brevipalpis Order: Diptera	provide its tsetse host with metabolites such as vitamins	0.10%	6.2
Proteus vulgaris Species-level Match	RISB2460	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	0.13%	6.1
Blattabacterium cuenoti Species-level Match	RISB0518	Cryptocercus punctulatus Order: Blattodea	collaborative arginine biosynthesis	0.42%	6.1
Candidatus Westeberhardia cardiocondylae Species-level Match	RISB1795	Cardiocondyla obscurior Order: Hymenoptera	a contribution of Westeberhardia to cuticle formation	0.06%	6.1
Clostridium	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	1.90%	6.1
Lactiplantibacillus plantarum Species-level Match	RISB0674	Drosophila melanogaster Order: Diptera	could effectively inhibit fungal spore germinations	0.08%	6.1
Candidatus Pantoea carbekii Species-level Match	RISB2115	Halyomorpha halys Order: Hemiptera	the primary bacterial symbiont of H. halys	0.18%	6.0
Candidatus Ishikawella capsulata Species-level Match	RISB2543	Megacopta punctatissima Order: Hemiptera	Enhance pest status of the insect host	0.26%	6.0
Blattabacterium cuenoti Species-level Match	RISB0093	Blattella germanica Order: Blattodea	obligate endosymbiont	0.42%	5.8
Arsenophonus	RISB1047	Aphis gossypii Order: Hemiptera	secondary symbiont reduction led to reduction of the total life span and intrinsic rate of natural increase as well as appearance of the deformed dead offspring. H. defensa and Arsenophonus contributed to the fitness of A. gossypii by enhancing its performance, but not through parasitoid resistance.	0.32%	5.3
Candidatus Erwinia haradaeae Species-level Match	RISB1632	Lachninae Order: Hemiptera	None	0.26%	5.3
Candidatus Annandia pinicola Species-level Match	RISB1661	Adelgidae Order: Hemiptera	None	0.24%	5.2
Candidatus Legionella polyplacis Species-level Match	RISB1687	Polyplax serrata Order: Phthiraptera	None	0.22%	5.2
Candidatus Carsonella ruddii Species-level Match	RISB0748	Diaphorina citri Order: Hemiptera	None	0.17%	5.2
Candidatus Palibaumannia cicadellinicola Species-level Match	RISB1594	Graphocephala coccinea Order: Hemiptera	None	0.13%	5.1
Lactiplantibacillus plantarum Species-level Match	RISB0608	Drosophila melanogaster Order: Diptera	None	0.08%	5.1
Gilliamella	RISB0102	Apis mellifera Order: Hymenoptera	Gilliamella apicola carries the gene for the desaturase FADS2, which is able to metabolize polyunsaturated fatty acids from pollen and synthesize endocannabinoid, a lipogenic neuroactive substance, thereby modulating reward learning and memory in honeybees.	0.07%	5.1
Arsenophonus	RISB1300	Aphis gossypii Order: Hemiptera	Arsenophonus sp. can have different effects on its hosts, including obligate mutualism in blood-sucking insects, improving the performance of whiteflies, or through facultative mutualism by protecting psyllids against parasitoid attacks.	0.32%	5.1
Zymomonas mobilis Species-level Match	RISB1326	Vespa mandarinia Order: Hymenoptera	None	0.06%	5.1
Candidatus Karelsulcia muelleri Species-level Match	RISB1591	Philaenus spumarius Order: Hemiptera	None	0.05%	5.1
Apibacter	RISB0603	Apis cerana Order: Hymenoptera	The acquisition of genes for the degradation of the toxic monosaccharides potentiates Apibacter with the ability to utilize the pollen hydrolysis products, at the same time enabling monosaccharide detoxification for the host	0.06%	4.5
Arsenophonus	RISB1334	Ommatissus lybicus Order: Hemiptera	the removal of Arsenophonus increased the developmental time of the immature stages and reduced the values of different life-history parameters including nymphal survival rate and adult longevity in the host	0.32%	4.5
Candidatus Blochmanniella	RISB2542	Camponotus Order: Hymenoptera	Blochmannia provide essential amino acids to its host,Camponotus floridanus, and that it may also play a role in nitrogen recycling via its functional urease	0.75%	3.9
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	0.11%	3.9
Candidatus Blochmanniella	RISB1827	Camponotus floridanus Order: Hymenoptera	a modulation of immune gene expression which may facilitate tolerance towards the endosymbionts and thus may contribute to their transovarial transmission	0.75%	3.8
Candidatus Blochmanniella	RISB2448	Camponotus floridanus Order: Hymenoptera	nutritional contribution of the bacteria to host metabolism by production of essential amino acids and urease-mediated nitrogen recycling	0.75%	3.5
Clostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	1.90%	3.0
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.10%	2.4
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	0.26%	2.3
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.10%	2.2
Micrococcus	RISB2276	Ostrinia nubilalis Order: Lepidoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	0.23%	2.1
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	0.11%	2.1
Clostridium	RISB1959	Pyrrhocoridae Order: Hemiptera	None	1.90%	1.9
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	0.26%	1.9
Candidatus Zinderia	RISB2451	Clastoptera arizonana Order: Hemiptera	Zinderia had gene homologs for the production of tryptophan, methionine, and histidine	0.08%	1.8
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	0.26%	1.5
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.20%	1.3
Chryseobacterium	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.47%	1.0
Providencia	RISB1001	Anastrepha obliqua Order: Diptera	improve the sexual competitiveness of males	0.10%	1.0
Providencia	RISB1574	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.10%	0.8
Providencia	RISB0984	Nasonia vitripennis Order: Hymenoptera	may highly associated with diapause	0.10%	0.8
Chryseobacterium	RISB1874	Aedes aegypti Order: Diptera	gut microbiome	0.47%	0.8
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.21%	0.6
Chryseobacterium	RISB0015	Aedes aegypti Order: Diptera	None	0.47%	0.5
Gilliamella	RISB0620	Spodoptera frugiperda Order: Lepidoptera	degrade amygdalin	0.07%	0.4
Peribacillus	RISB1877	Aedes aegypti Order: Diptera	gut microbiome	0.12%	0.4
Candidatus Zinderia	RISB1640	Clastoptera arizonana Order: Hemiptera	Nitrogen-Fixing	0.08%	0.4
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	0.34%	0.3
Myroides	RISB0626	Musca altica Order: Diptera	None	0.22%	0.2
Halomonas	RISB1374	Bemisia tabaci Order: Hemiptera	None	0.09%	0.1
Vagococcus	RISB0042	Aldrichina grahami Order: Diptera	None	0.08%	0.1
Gilliamella	RISB1945	Apis cerana Order: Hymenoptera	None	0.07%	0.1
Apibacter	RISB0604	Apis cerana Order: Hymenoptera	None	0.06%	0.1
Candidatus Profftia	RISB1664	Adelgidae Order: Hemiptera	None	0.06%	0.1
Helicobacter	RISB0662	Melanaphis bambusae Order: Hemiptera	None	0.06%	0.1