3300001475: Forest soil microbial communities from Browns Valley, California, USA, that are Nitrogen fertilized - NN102

Overview

Basic Information

• IMG/M Taxon OID: 3300001475
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053063 | Gp0054526 | Ga0002509
• Sample Name: Forest soil microbial communities from Browns Valley, California, USA, that are Nitrogen fertilized - NN102
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 41193602
• Sequencing Scaffolds: 45
• Novel Protein Genes: 49
• Associated Families: 49

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → Gemmatimonadaceae → Gemmatimonas → Gemmatimonas aurantiaca	2
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes	5
All Organisms → cellular organisms → Bacteria	9
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium ADurb.Bin222	1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	11
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Nannocystineae → Kofleriaceae → Haliangium → Haliangium ochraceum	1
Not Available	8
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Methylobacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → environmental samples → uncultured Gemmatimonadota bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Oscillatoriales → Oscillatoriaceae → Oscillatoria → Oscillatoria acuminata	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized

Alternative Ecosystem Assignments

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

Location Information

• Location: Browns Valley, California, USA
• Coordinates
  • Lat. (^o): 39.23550963
  • Long. (^o): -121.2836963
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001752	Metagenome / Metatranscriptome	642	Y
F001974	Metagenome / Metatranscriptome	609	Y
F002774	Metagenome / Metatranscriptome	531	Y
F003319	Metagenome / Metatranscriptome	494	Y
F003605	Metagenome / Metatranscriptome	477	Y
F003843	Metagenome / Metatranscriptome	466	Y
F004019	Metagenome / Metatranscriptome	457	Y
F004492	Metagenome	436	Y
F006205	Metagenome / Metatranscriptome	379	Y
F008790	Metagenome / Metatranscriptome	328	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12361J15250_1000022	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → Gemmatimonadaceae → Gemmatimonas → Gemmatimonas aurantiaca	6478
JGI12361J15250_1000148	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes	2937
JGI12361J15250_1000172	All Organisms → cellular organisms → Bacteria	2792
JGI12361J15250_1000354	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	2107
JGI12361J15250_1000400	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium ADurb.Bin222	2030
JGI12361J15250_1000473	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes	1893
JGI12361J15250_1000629	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	1677
JGI12361J15250_1000688	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Nannocystineae → Kofleriaceae → Haliangium → Haliangium ochraceum	1603
JGI12361J15250_1001076	Not Available	1351
JGI12361J15250_1001094	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium	1342

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12361J15250_1000022	JGI12361J15250_10000222	F003319	VRATRAIGFFAGVSAALIIVATIILRTYFRSVDQHNAMLISAGLAFAVQLGSYALLRPARRGHGAPGELMLRWGIGAVLRFAILVLYAPLARIANFSLDAALVSLVTFFFLTMMAEPLLLEYDR*
JGI12361J15250_1000022	JGI12361J15250_10000225	F015501	MNPVYRIDVARKVVLLFWSEFPTIARLREVVEQAIADPEFRPGMNFLWDRRPGDANTATIEYLREAVYYMQVMAEEIGAHAWAIVTHTPGDYGKARMLEAMTDVGKVLIRGFQSRGDAEEWLRNPVRYEPNNIHFPARSPSLMHPGYG*
JGI12361J15250_1000148	JGI12361J15250_10001484	F063991	MIGTKTLKGIALASALALGSACAGVKKTTTDINPAMNRAPTCANAIAVFNSRADVPNDYYELAWVEASGNSVWTTDNQLQTQIRNGAAKVGANAVIVNPVEQSKSTVKVLGEAVGAKSATQKASALAIYXPSDAARVTTACGT*
JGI12361J15250_1000172	JGI12361J15250_10001724	F031283	AGALTSTLTITVTPDEQYVAYKMEPAGTQFLKDVTVTQSLSATSLSGAPLRSQLYAAYIADDSVNLSGKVPVLEIEPSKTIFSPLSGLPDAQVWIIRHFSRYMLASG*
JGI12361J15250_1000354	JGI12361J15250_10003542	F003605	VAVGDAATAAGYPLVPDSGEEGKVKYGAREINRTRDIAAGLTALIPASKAAARLSAGISSGTAEPAGGIDGDIYLKILP*
JGI12361J15250_1000400	JGI12361J15250_10004003	F037912	MKMIGEPDAGNPQVRFDEGMQETCVRVARLRPTLQRP
JGI12361J15250_1000473	JGI12361J15250_10004733	F006205	MDDMKQTLDKLREELTNAGKRLAELAEKAESELPAAGKRINEEYLKLQALLDSAVEKLRN
JGI12361J15250_1000629	JGI12361J15250_10006293	F019257	VRLASRGQRDMDKGPEPILDASELGQVRRQASGVYVKAVITAVILTAIVVLL*
JGI12361J15250_1000655	JGI12361J15250_10006551	F077733	MTPIRSLALIALPLGLSGCFFATKSDFDRLQQDIVGTRATSNASDSVQRAYLVEVTRSVRTLNDSINALSRRVNSMRTATESDLAAMKEDISQLQDLSGQSEQKLRDMRAAVEEKTAQVDPSQVSDSAG
JGI12361J15250_1000688	JGI12361J15250_10006882	F063107	MVAARAGLSEFPIGDRVEADTFWVAFDPDKQSGPRCIEVLFFVAPGNGEHVWQCLDPTCGVTVAF*
JGI12361J15250_1001076	JGI12361J15250_10010762	F059436	MNRSAEDGEWSSPHSGGEGTGVPPRRTKVCAGDTVGKSVSDPGRPGIVHREGMAGIVRHSQTKGRETGNAKPGLKPPMVGADISASEGPTEAVPGVGSGRGTQERGQSKRPRIAAGRAATPVGSKRPTGGGRPRAVWQRRRATRG*
JGI12361J15250_1001094	JGI12361J15250_10010943	F016712	GGGGTGTPAIPPGIYLEFSRILDAKEPWFRGDPEIEVHIHGPTSAANPTYGDNLSCSGEHAPDYRKVFDQNGAFWEGRVMVFSGDEMVQYTNKFLEGFHVIFWEDDNEPCTLKLDSNVLVNLIQSTAAAFGSVAVKLLPKAPWTLAAGAFIATMIGTSAVWLQTNDDFLGIAVDQRQLGSPYPGNTHVIMDGQTLNGRATIVLH*
JGI12361J15250_1001302	JGI12361J15250_10013024	F023252	MIALLLALQIVGRAATAPAPTFVIVRDGATATSVPVTISAGQPTVRADALMRAMRGMLVTGTNLHYTLVLSRGRLDLIDGIPFAKLDTLTIPLSRAPQVLGGQLYLPFQFVSEVIPRYAGYVYDVAQAELRAAAGRAEPSAPTRA
JGI12361J15250_1001387	JGI12361J15250_10013872	F041056	MVRIFCAAIGLHLVLVIGSASAQQATPLKIRGDTTGAPRGCSAASGISAISAWFAAFTDADSARLAKASSTPNGRFVFSIGKFATSGTLIRGRTFDDLLAYARERARQHERMTVQEVRFNGWSGRVLQWDRLYFTRSADDLGEKPLRGVGNGGYWCRQGVWYLHLAPRPGIDAERP*
JGI12361J15250_1001665	JGI12361J15250_10016652	F016792	TVRPVRVVVLAINWTITWWVSRGLPRQVWVMKANEHDAXSGSVRPEGCRGPHHPVDPQGSMREYPVREPCPPKCCYPDMRRSNPTCEALGTTATIWEHQSGGGLAEDEWLNASERPWLRSVIENRPKVLIGRSQNGMRVGSSNGTLDDGGTVTRRTIGRSLPIRFSPLDNRVSPTRPVAARRRYPDRKAGDGGGGRGAAEQAKAAL*
JGI12361J15250_1001728	JGI12361J15250_10017281	F017155	ATILAAPLSGVGTRALQFGVIVPGTPAVTVLPNTPSGGEFRITGVKNRKSLDISFTLPTQLTGPAGASIPLSFNGNYAGLCEIDTSGVCEVASYFTWNPVTTPSFHDQPTRYKPGRPRYVYDEYQLYLGGVASPAATQRPGTYTASIGVLLVVN*
JGI12361J15250_1001819	JGI12361J15250_10018192	F002774	MQTRSLILLLGAVAVVASGACARDDDRSTTRVQVIDSAYAQSWEPMEDTGTVYRIAVVSRLGADTVRNVVPPAPIIVGDSLVIGLLQLSEDSSTPQRQIFTLRLGQHRVETTPLPEDVWPSYQDVLVSPDGRYLAYVGEDTMPANPGTYGIVRDLRTGAIVVKGPGGGGCDCDDDYNHARWFPPDSFEIAVAHRNSNGGWQRLSGKASASRVHVDTLSDEPDWH*
JGI12361J15250_1002003	JGI12361J15250_10020032	F062657	MFNTITRTQLVGYWFAAVAVVVAAAVVMGVNPAVSTTAVLLALSAVPPGIVVALWRGGPPQTVAEILYVTNKGTEGRS*
JGI12361J15250_1002450	JGI12361J15250_10024502	F082289	MSCKVTAIAAAILFDLNTHATAIESSVFMLQSGVKPKKIPMADPSAIECGVS
JGI12361J15250_1003063	JGI12361J15250_10030632	F055994	MIRHQVYFDRLGSLQEDSPSWRSVFAGLSVLRLVDSYVDTGASVDPTNWAQLHNVRSAVDNVSNGDPVRGVLTTVLEEATKRATI
JGI12361J15250_1003221	JGI12361J15250_10032211	F035436	LSGACRNAGNDPVPPSLPGSYVYAGKGSTFTKPWEFSARLDLAPDRHYTLTLDKAIDGHRDSTETDVGTYTVSGDHIQLRENGHGPRNSQDMHKLQIKADSLIAEVGWTAEVFIKGVGAPNVVFVKRRG*
JGI12361J15250_1003327	JGI12361J15250_10033272	F016259	VSPFTIAKLALMLVAAILLGWGIKTDDSALRWAGILFLFAALILRFFKPRKPRGLP*
JGI12361J15250_1003448	JGI12361J15250_10034482	F080312	MTATPLPFESRSATGFLKPMFSALQRRALRTSIIFGSVF
JGI12361J15250_1003552	JGI12361J15250_10035521	F008790	MITPILRSKDAIATWLIDVAGNVAISISDVALLRRIQSLIIPAFVSTEQAMVWGSDLNPEQHATLLDVQRRVSNAARVEADPQRMVNLATQ
JGI12361J15250_1003574	JGI12361J15250_10035741	F019413	SEVTVERTENTKQWLSSLAVPSGIRSTALTIFAGLSGHDRARCALALEDLVKAAFAQLDEASRLELNALIHELASTPLVAPGAAPH*
JGI12361J15250_1003896	JGI12361J15250_10038961	F056939	TTAKLGSSVVCALLLILLTTGGAAAQNVLAKIPIPATSATGQVAVSKVLNRVYVSADFSSGGTLTVIDGKTLTVLTTINNSNGVNVDINNDNFWTGNVTGGQVLAYSGSTNSQISANTVGFCPGETGFDCKKRRFWVGAQCGAGNDPLFVFDANTFALIAGPIATGGTMGPIVVNPLNGKLYFQSSGVCKKADPNTFSVTSTALGTVLAADQHKSKLFATSGNNLQIINGATDNVEYTVPLAYTPGGQIAVNNALRHIYLLN
JGI12361J15250_1003955	JGI12361J15250_10039552	F067158	RRSDADATVPNPVADILALKDTLHLSAVQIVGLTDVADSLQAKNGRIYQSIRALLARSREAGDVGQMTGSVALMLEEASRNTATAVSAAQKFLRPEQWEILPLSMREQIQSSTPDGSAQQ
JGI12361J15250_1004010	JGI12361J15250_10040101	F038475	MRKNYLLLAGAGAVLLAACSGEKKTSMDDDLKKSLELASSSDGITLANSSPAAGQQIVSAIERTSPPAKQQAPSNKVRHHKAAPKSPPEVVETQTLATVNEPEVQTVAQAPVADDPTPVSPRPRPTSV
JGI12361J15250_1004131	JGI12361J15250_10041311	F003843	GSSSRISTPSEPDSPIGEAKPQTELPRRTSKSIRGSRQVKLSSAARMLATFSIAASLPTSLFAQDSSDIHVSVHVPDSVAHVVDRESADHARFAIVSRDGQAALLLMDTTIVAQMTDRGLARMNSREATDTIKSAATRLFARMALGALVPFFDHGIAYHLRDLADAKYQNGRLLLIRGNGDEVFRDVEIGKGPLMESFRPADAEAFAAHARAARARLRG*
JGI12361J15250_1004509	JGI12361J15250_10045091	F001974	ETDAFTAPAGTNDMDIHVDVGPSGIESLKHASWDRLACLLRHWTWANEAMATFDRELATGLDDEDDPMSDHPFGAFYHWCALLCGLGEAALEHGLLSPLQLEPIRQDLEAGMPVLKACRQLLIVVPASLEEHPLIVTLVRDGDTLPRLRRLHHAFGEALREEQASREIDSLDK*
JGI12361J15250_1004627	JGI12361J15250_10046271	F083420	DAPNAVPVEKLAPKSSPAANDAQLREMKRAMETTAQDSNRSRMTPEALKEERIGMLRQKDPALGAAIDELDLELLD*
JGI12361J15250_1004845	JGI12361J15250_10048451	F052763	MVPPIAGLNASSEVSDRYDWLTPERLAHMRAVLLGLTLFFGLVVWIFHTLGPATARAPNFIVKLRGVGVLTWLYALVQMVDMRFYNSRFAQRRRAQLRIPESLSGWLLGQMLAWFGILYYGLTEDLRWYVAGLVIFALSFWAFPVREEKASSHSM*
JGI12361J15250_1005132	JGI12361J15250_10051322	F103636	MPWQSAEPGDINNFVNGNEVVGVEVYAGPGAPAQYTRAMGDCTTIVLWTKFKIRDLSTGSR*
JGI12361J15250_1005275	JGI12361J15250_10052752	F021355	GFGFTIALANLRQRLTKGEQVELKAVGFTPVPTLKPQLVTVQVSYGGIDRMKMAGRFYTGYRFIVHPEIPAIAKLFIQVPDTKIWLTSPAPAGFLRWEGPIILPTDPIRRVDLISDSASGAAEPVEKK*
JGI12361J15250_1005352	JGI12361J15250_10053521	F019412	MQILIQVLCTKGRSIRQAIADDPRIDRYGLQVTKEAQPGRAPGWLKLHAEEMRGALNVEWDAQSSVLSARVVTRGSRKPSPIVGAFVNYLLQRHDGRVQSITT
JGI12361J15250_1005611	JGI12361J15250_10056111	F070275	MRTWNALVVILVVAAAPARAQRAVDVPPGHTCTAITQANADASAGTVNIQHDGTPIPGIPAPDISRGFSGIPRSAQPPLTTSQQRILECTHHVAEANAESAYTLFVPS
JGI12361J15250_1005901	JGI12361J15250_10059012	F026671	REAGSERSMDQMCESMDKNRIQGVSVGRAGNLSQSPYPSRMRSVDSATVHRRQLNLPQEICSVSLQRLRWPKGDLTAEQKSAEGILGYAVGELVRHSNTERWSQQIGKPVTVTEGPNEKSGQ*
JGI12361J15250_1006386	JGI12361J15250_10063861	F076435	MAYTQEGIMAQIWIAFGQGAGAIRVSHDAALELYQWYYDKITPYIIHERWQTDAVQALDRIRAIGRHAAFLAARDGSTVIKPEYVYEAASKVQAQSLTPLC
JGI12361J15250_1006462	JGI12361J15250_10064623	F004019	MSIGKAAVIAAVSGVVVIVSLYAVVKGSMSAGMTRLLAILSLLSLVALAYGLIELALAVIATTAERRRQAREVS
JGI12361J15250_1007145	JGI12361J15250_10071452	F001752	MIRFASRIAIIATLAVGTPLVAGGQSAPWRQVYKDADVTVIFDTANLALQSPGTWTTVTSWDYARPRVTEFKKPYTRLVERAYVRCSPVRIKRVRSTLYATNNVLVRDEGEVDSRDVAHMVWDRPKPGTAGRNAFETVCGVIARKSGGKAAPAAAATTK
JGI12361J15250_1007908	JGI12361J15250_10079082	F049605	GRQSLYAFPIFWAIADGPRWLRYPPFAVLGFASNLALVLLLTHFAP*
JGI12361J15250_1007939	JGI12361J15250_10079391	F020261	MATFIVSPFGLFVRGLVAGLFRIPSEQTFAVLAYGWAVASGERQTITTYLWLTGATSVKHFSCFYRFLGGALYQSRWQLWARIIRGAARWVPEGAPIVLHVDDSTKKKAGRQIEGVGHYRNGAGSARQEYRTLRGLNFVWGQMRVPVSGWPGQSVSVPIGLSLYLKEEQADKLHLPYQTR
JGI12361J15250_1008207	JGI12361J15250_10082071	F105382	MMNKPVLVAAIVACLGVSAIAAAQAVFTKVQVADRIRKVEDGVDEFRKWADNRAEHGQSTAQDAKAS
JGI12361J15250_1008295	JGI12361J15250_10082951	F047855	LGALDGELMRHGGFALQAELVNTPLSSLAPSSTLDSVQLYAEKAELFATRDNYARARAFADSAWRLEKRTSDDPNLSAYVRRGQYEVLAWLAAMAGDRNVALKMLKKAGESPTISRYPKGQEAIQLACTTAAVFGFLGDAEAMVPFTRKCFTSANGYPVAYFQDPEFAWRKEDPRFADXLRP*
JGI12361J15250_1009822	JGI12361J15250_10098221	F081317	LGTILRITIAPAGRGARTTTALHMRRLGLLALLVALLPLGAAAQTPDDTTHFVHISPAIGVHYGAPLRFSIAAGGLFDFSDNRNDGIIAMGEMGQSGGQLSIGYFRMLRFGQGFDLRVAVLRTADDPWKAAESTTYVGAEAHLMFLVGVGGRVGWFRRVTAVNDGKPYDNVGMFGVSIG
JGI12361J15250_1011069	JGI12361J15250_10110691	F063192	MLNNNERRGFAIPIAILVIAVLTIMIAGGFSLVSAERRSVADQRSQISAFRIAEQGLELFLVRRDSLMQGKPSY
JGI12361J15250_1011528	JGI12361J15250_10115281	F004492	TKSGVRDPSYAHGIVVKMGAQDAFSFFDHFEELLFDRIGVPPRSLAANADQIRQSTHDRIEDTIFEMNKFVVDKNPMVGLAWKDISDAVQAKFKDVLEPTRTKQIEDLTRETYYVYIFLSLYARLDGLRSRGILSPNDDMIVTWKRSWLPNLMRSELGHWMLDNNLMEY
JGI12361J15250_1011557	JGI12361J15250_10115571	F015476	MDVLRNLFGNLSAGIIRLLVTVGILAAVYFFIVKPTLDTTEKVSHEVNVNVQKSFEQGGLSEISETIDDVNGQVRREVKRSLRASQRQGDADKLIRCIQRAHQNVDR
JGI12361J15250_1011814	JGI12361J15250_10118141	F037668	HRIIVKMGEQEDFSFFDRFEQLLFDRIGVPPRSLSANVEQIRQSTFDRINSTIFEMNRFVVDRNPMVGLCWRNISDAVKAKVQNFPEPQRQKQTEDLIKQIYYVYIVLDQYAQLDDLRTRGYMSADDAKITEWKRSNLPNLMGSEVGKWMLENDLMEYYSEQMIKDL