3300001641: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF004

Overview

Basic Information

• IMG/M Taxon OID: 3300001641
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0085736 | Gp0057255 | Ga0003843
• Sample Name: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF004
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 13438700
• Sequencing Scaffolds: 38
• Novel Protein Genes: 39
• Associated Families: 36

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	3
Not Available	19
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Nordella → unclassified Nordella → Nordella sp. HKS 07	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. NAS80.1	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): forest biome → land → forest soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Harvard Forest LTER, Petersham, MA, USA
• Coordinates
  • Lat. (^o): 42.532967
  • Long. (^o): -72.180244
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001465	Metagenome / Metatranscriptome	689	Y
F003565	Metagenome / Metatranscriptome	479	Y
F003899	Metagenome / Metatranscriptome	463	Y
F005285	Metagenome / Metatranscriptome	406	Y
F007399	Metagenome / Metatranscriptome	352	Y
F008645	Metagenome	330	Y
F008841	Metagenome / Metatranscriptome	327	Y
F013667	Metagenome / Metatranscriptome	269	Y
F013668	Metagenome	269	Y
F019724	Metagenome / Metatranscriptome	228	N
F022644	Metagenome / Metatranscriptome	213	Y
F023640	Metagenome / Metatranscriptome	209	Y
F026367	Metagenome / Metatranscriptome	198	Y
F029518	Metagenome / Metatranscriptome	188	Y
F032469	Metagenome / Metatranscriptome	180	Y
F032874	Metagenome / Metatranscriptome	179	Y
F033732	Metagenome / Metatranscriptome	176	Y
F033942	Metagenome / Metatranscriptome	176	Y
F035458	Metagenome / Metatranscriptome	172	Y
F035943	Metagenome	171	Y
F036891	Metagenome / Metatranscriptome	169	N
F037452	Metagenome / Metatranscriptome	168	Y
F038357	Metagenome / Metatranscriptome	166	Y
F041178	Metagenome / Metatranscriptome	160	N
F041365	Metagenome / Metatranscriptome	160	Y
F043334	Metagenome / Metatranscriptome	156	N
F046730	Metagenome / Metatranscriptome	151	Y
F047352	Metagenome	150	Y
F050785	Metagenome / Metatranscriptome	145	Y
F052779	Metagenome / Metatranscriptome	142	Y
F055082	Metagenome / Metatranscriptome	139	Y
F057593	Metagenome	136	Y
F067238	Metagenome / Metatranscriptome	126	Y
F076339	Metagenome / Metatranscriptome	118	Y
F087952	Metagenome / Metatranscriptome	110	Y
F090108	Metagenome / Metatranscriptome	108	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI20238J16299_100029	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2692
JGI20238J16299_100031	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2667
JGI20238J16299_100032	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2651
JGI20238J16299_100036	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	2616
JGI20238J16299_100048	Not Available	2478
JGI20238J16299_100057	All Organisms → cellular organisms → Bacteria	2285
JGI20238J16299_100248	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1526
JGI20238J16299_100345	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Nordella → unclassified Nordella → Nordella sp. HKS 07	1384
JGI20238J16299_100358	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1356
JGI20238J16299_100416	Not Available	1278
JGI20238J16299_100484	Not Available	1203
JGI20238J16299_100624	Not Available	1079
JGI20238J16299_100883	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	915
JGI20238J16299_100991	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	864
JGI20238J16299_101021	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	849
JGI20238J16299_101181	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	786
JGI20238J16299_101247	All Organisms → cellular organisms → Bacteria	769
JGI20238J16299_101357	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	742
JGI20238J16299_101370	Not Available	739
JGI20238J16299_101452	Not Available	722
JGI20238J16299_101728	Not Available	666
JGI20238J16299_101749	Not Available	662
JGI20238J16299_101958	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. NAS80.1	630
JGI20238J16299_101962	All Organisms → cellular organisms → Bacteria → Acidobacteria	629
JGI20238J16299_101994	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	624
JGI20238J16299_102286	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	589
JGI20238J16299_102311	Not Available	587
JGI20238J16299_102331	Not Available	585
JGI20238J16299_102461	Not Available	574
JGI20238J16299_102519	Not Available	569
JGI20238J16299_102574	Not Available	564
JGI20238J16299_102738	Not Available	552
JGI20238J16299_102760	Not Available	551
JGI20238J16299_102798	Not Available	548
JGI20238J16299_102961	All Organisms → cellular organisms → Bacteria	537
JGI20238J16299_103032	Not Available	532
JGI20238J16299_103406	Not Available	509
JGI20238J16299_103436	Not Available	508

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI20238J16299_100029	JGI20238J16299_1000294	F037452	MGSSFLSEVDDTSILRTGALHRYHYPLTWLPASRLLLPRSGLERSDFVHWHQ
JGI20238J16299_100031	JGI20238J16299_1000311	F037452	MGSSILSEVDDTSILRTGLSTCYWRPLGRLPASRLRPPRSGLERSDFVPWPLA
JGI20238J16299_100032	JGI20238J16299_1000321	F037452	MESSFLIEVDNTSILRTGALHCYHYTLNRLPAPRLLLPCSGLERSDFVL
JGI20238J16299_100036	JGI20238J16299_1000361	F087952	VGLHQCPSERKGEGVPVRSLRVPSHVPSHPQTAAKVRGFSPIASGFTAETDWLLEQSGFELWVPPACDAPGSHKVR
JGI20238J16299_100048	JGI20238J16299_1000484	F003899	MTGFIVSVFPFRNRVSSKEAFEGLELGEGKPSRPVLRGPGGRKAAWLLGSNPKKS
JGI20238J16299_100057	JGI20238J16299_1000573	F038357	MCPGDPLGNHRQRPIAVSLVFEPVLAHEDGMGVPAPLPHQGRAGLQRSAGVERTSAFLELSRQNLQTALQGGGRAAMGTLLQLIGEPPDDQIATEAQRRADVMQSPPRTPQLLCRLTDQLSDFAINLCQCQTSQPVLPAAVCTERLARVLASRSVVEWGFHGLAGSAMRYTRPRSSLAEARGSPSFFFKVPEKTPRTV*
JGI20238J16299_100248	JGI20238J16299_1002482	F055082	AGRRLKIPIWMLLPECAEIKISQQPHLGKNALLSLASLSTSQLDFKDRVHDNLLQTRISGCEEGCRGATSTSGPDDRKGMRCRANGRSDTRRSDRSHGPXSGSGLSRGGGKSQ*
JGI20238J16299_100345	JGI20238J16299_1003453	F032469	MRGFDRDLIRGEHYGQRSCEPHSKAEHMAAPTKPAT*
JGI20238J16299_100358	JGI20238J16299_1003583	F007399	MVIFKCPYCRTEYEMTTARLSFQQRSYAKCQVCHQTMYSWNSRNVPLFKLINASA
JGI20238J16299_100416	JGI20238J16299_1004164	F033942	MAANHTKLIGLCVGAILAISAAPMHAQAHQPSAGMLKAEARNFFKIISGDKRKSQTYCKIVELNDQIDEKEDPIDARKLKKKRDKLEEKLGRKYIALVAGVMNIDRDSRDYRAIASILEPLDKLCTAIKNQHRRRTREEHRRRVPGE*
JGI20238J16299_100484	JGI20238J16299_1004842	F067238	AMVVSVAETAGEIPSGKVERGERKQTADDVSKAD*
JGI20238J16299_100624	JGI20238J16299_1006243	F022644	SRQGRSLAGCKSPYRQLPVVGRLAYPMRGEVTNRVLLGRKSPGCPAGVFAAVGTIWGASKLGGRNITKYLQPRNSPLARSRFKRDRCGKPTHFPVGKADDTVEETGASTRCTAGVGDPASKERLLEITSGSCRGQQGLVTTCKDSPNEAKSRRRREPNGSGA*
JGI20238J16299_100883	JGI20238J16299_1008832	F035458	MATSSDLAHEYYALQINGRISSTHRRFEDALRAGLLLKYQFPHDDIKVYETKSAEEVMPGIVFH*
JGI20238J16299_100883	JGI20238J16299_1008833	F057593	MFDGDYSGPGEELVMTTAKEYRAHAKKCFIRAQETESEELRQASLEMASYWMDAAMRTECLGDSRVEPEQRAA*
JGI20238J16299_100991	JGI20238J16299_1009911	F046730	MGLENVFLSVRPIVESLARSTMWSSTTLFSNNRKVHRARPLGGLEQAKAISLASF
JGI20238J16299_101021	JGI20238J16299_1010212	F013668	MPELLEWRERLEGAHKQMQEAMTELITNKNYSEAERLLHVVDKRMLDLIEDMGGTVVRSGLWT*
JGI20238J16299_101181	JGI20238J16299_1011811	F041178	EQASHDEGLVKGSHHGDIETSPVASVSKVQAHLRDAARFRARSTSHAVAAHSSCTKIPLSAGRAQEDENHSRKRHFRPWLATVRLPGSARTDQVLGDDGITLVYSLGNLHRNAFDNDTGGHVFPERDQ*
JGI20238J16299_101247	JGI20238J16299_1012472	F005285	DMNQGSLFGKGTAFMIDERSEEPCPKGDRAFVRAKKRGNARGAKGGRKVEA*
JGI20238J16299_101357	JGI20238J16299_1013572	F029518	PARRSALTEAGESGQAGMIKALSLLALTALLTACVSPDNVRAAPEDTWTWQVNQNYQRFAHCVTDTLNSAPVQSWFYQAPRPITSFDQQWQRHRIILKSIDPLGVEQVRIEVNGVSEHDTRIVAGAKNLEAFGGGAPMVYVRAYVDVCARA*
JGI20238J16299_101370	JGI20238J16299_1013702	F090108	NYEDLLDRLKAVAGNLFRARGETVTDIKIIPSERPALQVFH*
JGI20238J16299_101452	JGI20238J16299_1014521	F036891	MNGTGPQMKKLLERARAYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGQVVRNEAGRWSIGLSAVPHTNGRAVRATNGK
JGI20238J16299_101728	JGI20238J16299_1017281	F001465	MRIAAHTVIVATGVIGLIGSALAAEMTGADIKTFLSGNTAYLKTTAASASGQVRNGVIYWNADGMALYKRPLGGMMHGKWAIKGNALCAQWKERPGTGCVRYDKTGDAVTVIDVKSRKTRAKIVKVAPGNAEKLT
JGI20238J16299_101749	JGI20238J16299_1017491	F019724	MNKHFIANKYLPIALALAAFTAAGTAPVFAQQSGRDAGISTRNAQPFVHKQTTKRSGYSSYARTGYSAVVPPSVGRPDPFGVNGWFNR*
JGI20238J16299_101958	JGI20238J16299_1019581	F003565	SLAVRPEGANHQWRKIPPGELSIDPVANERLGWVTGRAGAS*
JGI20238J16299_101962	JGI20238J16299_1019622	F023640	MTLAIIIVISAVLALGIILSVAVTRSLQFKGSTGTAIAIRPIDIEAFRNLIDPAEDDYLRRRLPSARYRAVRRERLRAMAAYVHTASSNAAVLVRVGGAALATADPQVA
JGI20238J16299_101994	JGI20238J16299_1019942	F041365	APDPVSVTMPAREYEDFLKNARTEIMGDPEAVRLMRATHVKEPV*
JGI20238J16299_102286	JGI20238J16299_1022862	F026367	MASIWLRPEGRQEQRLQELINRLAEEHGTVKFAPHLTVCGIPDDLAVLDAAADYVSDAAADYVRHCGLLPLKVAKIAVTGAVITPFRAVFIEVENSPELREFRERLRDIVGAPPLIP
JGI20238J16299_102311	JGI20238J16299_1023111	F035943	MNRPLIVSILLISAVPEYAQGQQPNMAKLKADAQKVVSIISGDKAKTQTYCQINDLGGQIGEANEDQDNKKAEALSQKVIELEKKLGPEYVALVDGLKNVDPNSPEGAEISSILETLDDSCPDE*
JGI20238J16299_102331	JGI20238J16299_1023311	F032874	NMPTNLKIVPRLLSSAAAAFVLLAGLNADAQSPARSSVVIPPIPPGQARIWVYSGSQPTSPFNYPRMEAITFNGAKVGYEQLGQGFYRNVAPGHYVIAAPSFLALDPSQSATVXLAAGQEAYLKLDGLGWPNGGGENTVVEYYVRLMPPQSARTAVAQLAYLSGD*
JGI20238J16299_102461	JGI20238J16299_1024611	F050785	VFLAADMLILVRRAQICNTLIVSTLASCQKLPATVPDLANRPRQLVFLTPLNSQLNDFLNEVHQIARLEPSIVERIDEDLDLHAKKKKLLRLIDAQFLAGQTPDLPKLQLQLRELKLDDIELEEGRPRTEAYIVYLFLMLRGLIGGCKDQHARLLQEESITLKLWLNDLGLELPPASTLSENLNAVSNQTR
JGI20238J16299_102519	JGI20238J16299_1025191	F035458	MGCLMKNGIATDSSLSRECYVLQINGRVNSTHRCFEDALRAGLQLKYEFPHDDIKLREITSEEIMQETGLH*
JGI20238J16299_102574	JGI20238J16299_1025741	F052779	AKLRRASQTGFGSNQPMSERIVTDSMVATTKPAPVSARNSMQAGASDLRMLAQVEKWMAMIREINREQQSQPAFQR*
JGI20238J16299_102738	JGI20238J16299_1027382	F013667	MRPPNTNAMTALIHQQLELDPAVNTPNGIIRQAKLRESDAERIGKLERNYQGYTAELRRRYSLEASGQHSPIAIAVAAA*
JGI20238J16299_102760	JGI20238J16299_1027602	F047352	MRIFGYVGIGFLIVWLLAPAPMAVAETATIKAVTPDGTQSPSQPTPEEDLLNLQD*
JGI20238J16299_102798	JGI20238J16299_1027982	F043334	MRNLVISALVVGLLSLLPLSPRVGPSSGLLPVSISLGQDEAKAYVTYRRARVTTRRVYR
JGI20238J16299_102961	JGI20238J16299_1029612	F008841	GSLSAAVEQVYPLDQFKQAIDRSLKSSRYGKILFKFDAG*
JGI20238J16299_103032	JGI20238J16299_1030321	F033732	IFVGVRSGDFLTDEKIGWRDAYEAQLRAAMRPLALAAE*
JGI20238J16299_103406	JGI20238J16299_1034061	F076339	MFKNKKLASALLLSTFVAASVATTALAAGSAEPPQIPGYDRQGGTVPIPNPDRS*
JGI20238J16299_103436	JGI20238J16299_1034361	F008645	RKLWPSEWLYWHTERHCWDRIKGTSGTYDERQPEPPPSSQQQAADVIPAALPKQVTTTKEKKLPEPEILYPAVLINKSNILETVPLTVKQPWLSPHSILGWPLLIDVDRPAFREWEKRIGNE*