SRR19201365 - Lyctus brunneus

Basic Information

Run: SRR19201365

Assay Type: WGS

Bioproject: PRJNA836854

Biosample: SAMN28175362

Bytes: 981468080

Center Name: JOHANNES GUTENBERG-UNIVERSITY MAINZ

Sequencing Information

Instrument: Illumina HiSeq 3000

Library Layout: PAIRED

Library Selection: RANDOM

Platform: ILLUMINA

Geographic Information

Country: Germany

Continent: Europe

Location Name: Germany: Berlin

Latitude/Longitude: -

Sample Information

Host: Lyctus brunneus

Isolation: beetle abdomen

Biosample Model: Metagenome or environmental

Collection Date: 2015

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	3.80%	21.5
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	0.34%	20.2
Pseudomonas sp. 15A4 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	0.04%	19.9
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)	0.34%	18.7
Lactococcus lactis Species-level Match Host Order Match	RISB0967	Oulema melanopus Order: Coleoptera	contribute to the decomposition of complex carbohydrates, fatty acids, or polysaccharides in the insect gut. It might also contribute to the improvement of nutrient availability.	0.12%	18.7
Morganella morganii Species-level Match Host Order Match	RISB1867	Costelytra zealandica Order: Coleoptera	Female beetles were previously shown to use phenol as their sex pheromone produced by symbiotic bacteria in the accessory or colleterial gland	0.04%	17.9
Bacillus subtilis Species-level Match Host Order Match	RISB0494	Sitophilus oryzae Order: Coleoptera	bacteria can degrade malathion, pirimiphos-methyl, and deltamethrin and utilize these insecticides as the carbon source in vitro.	0.28%	17.9
Enterococcus faecalis Species-level Match Host Order 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%	17.7
Bacillus sp. 1NLA3E Species-level Match Host Order Match	RISB1645	Osphranteria coerulescens Order: Coleoptera	The isolate has cellulolytic activity and can hydrolyze CMC, avicel, cellulose and sawdust with broad temperature and pH stability	0.05%	17.7
Enterococcus faecalis Species-level Match Host Order Match	RISB2042	Harpalus pensylvanicus Order: Coleoptera	E. faecalis facilitate seed consumption by H. pensylvanicus, possibly by contributing digestive enzymes to their host	0.11%	17.5
Lactococcus lactis Species-level Match Host Order Match	RISB1430	Rhynchophorus ferrugineus Order: Coleoptera	promote the development and body mass gain of RPW larvae by improving their nutrition metabolism	0.12%	17.0
Bacillus cereus Species-level Match Host Order Match	RISB1056	Oryctes rhinoceros Order: Coleoptera	provide symbiotic digestive functions to Oryctes	1.08%	17.0
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	0.37%	17.0
Morganella morganii Species-level Match Host Order Match	RISB1548	Costelytra zealandica Order: Coleoptera	symbionts residing in the colleterial glands produce phenol 1 as the female sex pheromone	0.04%	16.8
Morganella morganii Species-level Match Host Order Match	RISB1868	Costelytra zealandica Order: Coleoptera	produces phenol as the sex pheromone of the host from tyrosine in the colleterial gland	0.04%	16.8
Enterococcus faecalis Species-level Match Host Order Match	RISB0374	Tribolium castaneum Order: Coleoptera	modulates host phosphine resistance by interfering with the redox system	0.11%	16.6
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1153	Tenebrio molitor Order: Coleoptera	degrading plastics	1.08%	16.4
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB0139	Tenebrio molitor Order: Coleoptera	correlated with polyvinyl chloride PVC degradation	0.34%	16.3
Wolbachia pipientis Species-level Match Host Order Match	RISB2621	Tribolium confusum Order: Coleoptera	induces cytoplasmic incompatibility	0.07%	15.8
Lactococcus lactis Species-level Match Host Order Match	RISB1065	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.12%	15.3
Staphylococcus epidermidis Species-level Match Host Order Match	RISB1070	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.09%	15.3
Staphylococcus hominis Species-level Match Host Order Match	RISB1071	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.04%	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	0.29%	13.8
Sphingobacterium Host Order Match	RISB2227	Leptinotarsa decemlineata Order: Coleoptera	Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)	0.17%	13.5
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	5.21%	13.2
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	3.80%	13.1
Proteus 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	0.11%	12.8
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	0.29%	12.7
Bacteroides Host Order Match	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	0.27%	12.3
Micrococcus Host Order Match	RISB2277	Leptinotarsa decemlineata Order: Coleoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	0.08%	12.0
Vibrio Host Order Match	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.50%	11.8
Bradyrhizobium Host Order Match	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	0.11%	11.7
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	1.55%	11.6
Candidatus Mesenet Host Order Match	RISB1785	Brontispa longissima Order: Coleoptera	induced complete Cytoplasmic incompatibility (CI) (100% mortality)	0.20%	11.5
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	1.55%	11.3
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.	1.08%	11.1
Spiroplasma Host Order Match	RISB0250	Tenebrio molitor Order: Coleoptera	associated with PE biodegradation	0.29%	11.0
Blattabacterium cuenoti Species-level Match	RISB0518	Cryptocercus punctulatus Order: Blattodea	collaborative arginine biosynthesis	5.21%	10.9
Blattabacterium cuenoti Species-level Match	RISB0093	Blattella germanica Order: Blattodea	obligate endosymbiont	5.21%	10.6
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	1.55%	10.4
Paenibacillus polymyxa Species-level Match	RISB2195	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.	0.11%	10.1
Candidatus Walczuchella monophlebidarum Species-level Match	RISB2075	Llaveia axin axin Order: Hemiptera	could be supplying most of these precursors for the amino acid biosynthesis as it has the potential to make ribulose-5P from ribose-1P and also PEP and pyruvate from glycolysis. It is also capable of producing homocysteine from homoserine for methionine biosynthesis,	0.10%	10.1
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.	0.07%	10.1
Escherichia coli Species-level Match	RISB2120	Galleria mellonella Order: Lepidoptera	mediate trans-generational immune priming	3.80%	9.6
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.	0.34%	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	0.37%	9.3
Clostridium sp. AWRP 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	0.08%	9.3
Clostridium sp. OS1-26 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	0.05%	9.3
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
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	0.09%	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	0.37%	9.1
Staphylococcus xylosus Species-level Match	RISB2497	Anticarsia gemmatalis Order: Lepidoptera	allow the adaptation of this insect to plants rich in protease inhibitors, minimizing the potentially harmful consequences of protease inhibitors from some of this insect host plants, such as soybean	0.05%	9.0
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	0.05%	9.0
Acinetobacter pittii Species-level Match	RISB1977	Blattella germanica Order: Blattodea	gut microbiota contributes to production of VCAs that act as fecal aggregation agents and that cockroaches discriminate among the complex odors that emanate from a diverse microbial community	0.07%	8.9
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	0.34%	8.0
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	0.07%	7.6
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	1.08%	7.1
Candidatus Walczuchella monophlebidarum Species-level Match	RISB2074	Llaveia axin axin Order: Hemiptera	may provide metabolic precursors to the flavobacterial endosymbiont	0.10%	6.4
Providencia rettgeri Species-level Match	RISB1001	Anastrepha obliqua Order: Diptera	improve the sexual competitiveness of males	0.26%	6.1
Lactiplantibacillus plantarum Species-level Match	RISB0674	Drosophila melanogaster Order: Diptera	could effectively inhibit fungal spore germinations	0.06%	6.1
Providencia rettgeri Species-level Match	RISB1169	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.26%	5.8
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	0.62%	5.6
Chryseobacterium sp. 3008163 Species-level Match	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.06%	5.6
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	1.85%	5.6
Candidatus Karelsulcia muelleri Species-level Match	RISB1591	Philaenus spumarius Order: Hemiptera	None	0.58%	5.6
Providencia rettgeri Species-level Match	RISB1352	Nasonia vitripennis Order: Hymenoptera	None	0.26%	5.3
Candidatus Erwinia haradaeae Species-level Match	RISB1632	Lachninae Order: Hemiptera	None	0.08%	5.1
Lactiplantibacillus plantarum Species-level Match	RISB0608	Drosophila melanogaster Order: Diptera	None	0.06%	5.1
Candidatus Carsonella ruddii Species-level Match	RISB0748	Diaphorina citri Order: Hemiptera	None	0.05%	5.1
Treponema	RISB2377	termite Order: Blattodea	when grown together, two termite-gut Treponema species influence each other's gene expression in a far more comprehensive and nuanced manner than might have been predicted based on the results of previous studies on the respective pure cultures	0.06%	4.9
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	0.04%	4.5
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	1.85%	3.8
Photorhabdus	RISB2532	Manduca sexta Order: Lepidoptera	produces a small-molecule antibiotic (E)-1,3-dihydroxy-2-(isopropyl)-5-(2-phenylethenyl)benzene (ST) that also acts as an inhibitor of phenoloxidase (PO) in the insect host Manduca sexta.	0.04%	3.8
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	3.75%	3.8
Sphingobacterium	RISB1226	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.17%	2.9
Photorhabdus	RISB2573	Manduca sexta Order: Lepidoptera	the bacteria are symbiotic with entomopathogenic nematodes but become pathogenic on release from the nematode into the insect blood system	0.04%	2.8
Bartonella	RISB1673	Apis mellifera Order: Hymenoptera	a gut symbiont of insects and that the adaptation to blood-feeding insects facilitated colonization of the mammalian bloodstream	0.06%	2.6
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.27%	2.6
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.27%	2.4
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	0.25%	2.3
Proteus	RISB2315	Aedes aegypti Order: Diptera	upregulates AMP gene expression, resulting in suppression of DENV infection in the mosquito gut epithelium	0.11%	2.2
Agrobacterium	RISB0710	Fragariocoptes setiger Order: Trombidiformes	it appears to form a biologically important association with the mite	0.72%	2.1
Micrococcus	RISB2276	Ostrinia nubilalis Order: Lepidoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	0.08%	2.0
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	0.25%	1.9
Sphingobacterium	RISB1400	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.17%	1.5
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	0.25%	1.5
Photorhabdus	RISB0532	Drosophila melanogaster Order: Diptera	produces toxin complex (Tc) toxins as major virulence factors	0.04%	1.3
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.13%	1.2
Proteus	RISB2460	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	0.11%	1.1
Agrobacterium	RISB0650	Melanaphis bambusae Order: Hemiptera	None	0.72%	0.7
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.24%	0.6
Peribacillus	RISB1877	Aedes aegypti Order: Diptera	gut microbiome	0.08%	0.4
Cupriavidus	RISB0694	Alydus tomentosus Order: Hemiptera	None	0.24%	0.2
Legionella	RISB1687	Polyplax serrata Order: Phthiraptera	None	0.09%	0.1
Helicobacter	RISB0662	Melanaphis bambusae Order: Hemiptera	None	0.09%	0.1
Treponema	RISB0169	Reticulitermes flaviceps Order: Blattodea	None	0.06%	0.1
Apibacter	RISB0604	Apis cerana Order: Hymenoptera	None	0.04%	0.0