[No authors listed]
Songbirds have one of the most accessible neural systems for the study of brain mechanisms of behavior. However, neuroethological studies in songbirds have been limited by the lack of high-throughput molecular resources and gene-manipulation tools. To overcome these limitations, we constructed 21 regular, normalized, and subtracted full-length cDNA libraries from brains of zebra finches in 57 developmental and behavioral conditions in an attempt to clone as much of the brain transcriptome as possible. From these libraries, approximately 14,000 transcripts were isolated, representing an estimated 4,738 genes. With the cDNAs, we created a hierarchically organized transcriptome database and a large-scale songbird brain cDNA microarray. We used the arrays to reveal a set of 33 genes that are regulated in forebrain vocal nuclei by singing behavior. These genes clustered into four anatomical and six temporal expression patterns. Their functions spanned a large range of cellular and molecular categories, from signal transduction, trafficking, and structural, to synaptically released molecules. With the full-length cDNAs and a lentiviral vector system, we were able to overexpress, in vocal nuclei, proteins of representative singing-regulated genes in the absence of singing. This publicly accessible resource http://songbirdtranscriptome.net can now be used to study molecular neuroethological mechanisms of behavior.
KEYWORDS: {{ getKeywords(articleDetailText.words) }}
SHFM1, UBE2R2, TUBB4B, CKS1B, SPRYD7, RAP1A, TMEM41A, REEP5, SLC7A6OS, CYBASC3, NUS1, RPS9, LOC100189937, LOC100189938, LOC100189939, LOC100189940, LOC100189941, ATG12, CCDC58, LOC100189944, LOC100189945, GPN3, LOC100189947, RPL31, MRPS36, WASF1, LIMD2, SYS1, HBE1, CNIH1, LOC100189956, LOC100189957, DAP, LOC100189959, NUDT4, RPS25, LOC100189962, SHISA5, RPS11, NCS1, S100A1, LOC100189967, RNF113A2, LOC100189969, COMMD3, MED7, LOC100189972, CXCL12, DBX2, EIF4E, FAM168A, LYRM5, LOC100189978, MCPH1, RPP14, SEPT3, LOC100189982, LOC100189983, SREK1IP1, LOC100189986, ARHGAP32, B3GNT7, BSDC1, BTF3, TFDP1, SAMD12, TAGLN, CD9, COMMD9, C21H1orf50, WDR61, SMCO4, PSMA6, RPL23, LOC100190001, LOC100190002, LOC100190003, RALA, RPL14, DPCD, BCCIP, CPLX1, LSM3, PACSIN3, C1AH7orf55, ANXA4, PPP1CA, LOC100190014, TM6SF1, POLR2H, LOC100190017, PLEKHB2, AKIRIN2, MYCT1, CHCHD6, LOC100190022, DNAJC25, PCYT1B, STRBP, LOC100190026, MCTS1, TIMM10, NSA2, LOC100190030, LOC100190031, LOC100190032, MLEC, LOC100190035, LOC100190036, MRPL9, DCUN1D5, TRAPPC2L, CMC2, C10H15orf61, MRPL42, DAD1, RNF185, LOC100190045, CDKN1B, HBAD, MTX2, LOC100190049, PMS2, BNIP1, PHPT1, ALYREF, NR2F2, LOC100190055, RPS16, DYNLT1, AKR7A2, LOC100190059, C1H21orf59, NTHL1, LOC100190062, FAM96A, NDUFC2, GRPEL1, ATP6V1E1, RPSA, PENK, LOC100190069, MOCS2, S100B, RPL36, NUP35, JMJD8, CCDC25, LOC100190077, CDC26, PSMA4, RPS15, LHFPL5, ACOT13, IER3IP1, LOC100190084, SNX3, DECR1, NDUFAF1, MZT1, PPCS, CCT2, RBX1, TMEM189, LOC100190094, LOC100190095, LOC100190096, LOC100190097, ISCA2, SNRNP48, SLC40A1, ARFRP1, SFT2D1, RPL34, CDK2AP1, LOC100190105, LSM6, NAA20, MAEA, LOC100190109, RNF126, HMGN5, LOC100190112, TIMM9, LOC100190114, LOC100190115, PAK1IP1, DIRAS3, TOMM20, RPF2, RABL2A, LOC100190121, ATP5J2, LOC100190123, C17H9orf16, DUT, RHEB, LOC100190127, SPAG7, ZNF346, SUPT4H1, LOC100190131, RPS6, LOC100190133, NDUFA8, LOC100190135, MED10, LOC100190137, RPL24, AHSA2, ANP32A, LYRM1, RRP7A, LOC100190143, RPS26, SLC25A5, SLC25A6, PITHD1, LOC100190148, UPRT, MOSPD1, LOC100190151, UCK2, PDZD11, ALDH3A2, C1H11orf73, NINJ1, PARL, AK3, CCDC137, PSMG3, RAN, EAPP, CLTA, LMO1, TMEM50B, MPZL1, LOC100190168, LOC100190169, PTGR2, AP2M1, TMEM80, SARNP, APITD1, MRPL2, RPS21, RPL7A, MRPL17, ATP5I, TAF13, LOC100190183, SSR3, RPL9, LOC100190186, SUB1, COPS5, SNCB, CALB2, PDRG1, DKK3, FSCN1, AHSA1, UBE2V2, HAGH, COX19, NDUFA5, LOC100190199, NDFIP1, SYF2, WBP2NL, VAMP4, LOC100190204, ARPC4, ZMYND19, NTPCR, ISCU, MRPS6, PITPNB, RPL30, RPLP1, LOC100190213, LAMTOR2, VPS26A, CLYBL, ASPH, POLDIP2, LOC100190219, CCK, ATP5F1, LOC100190222, MMADHC, POLR2D, SVBP, TMEM230, TRUB2, PYCR1, LOC100190229, LOC100190230, SRSF7, SUMO1, PPT1, COQ9, ENY2, POLR2C, LOC100190237, ARPC3, ELMO1, SEC61B, HPCAL1, HMGN1, LOC100190243, TMEM138, U2AF1, LOC100190247, PPP1R7, LOC100190249, C1H12orf57, IMMP1L, LYRM4, SNRPG, YIPF6, LOC100190255, ATPAF1, LOC100190257, LOC100190258, RBM8A, LOC100190260, TPT1, DERL3, LOC100190263, EMC7, RPS13, NUDT16L1, ANKRD49, GLRX5, GADD45B, PSMC1, LOC100190271, VIMP, LMAN2L, MRPL30, NDUFB9, NDUFA2, HN1, ITPA, DYNLRB1, LOC100190280, PSMC3IP, MEAF6, NFU1, RPS3, GRB2, MPC1, RPS3A, NDUFS6, PSMD14, SEC11C, MMAB, MRPS18A, LSM1, LOC100190295, DPM1, PDCD5, UBE2I, DNALI1, MID1IP1, LOC100190302, EIF4A3, CNEP1R1, RPUSD4, OCIAD1, ZSWIM7, MRPS17, TP53RK, TMED2, YWHAG, SELK, NUDCD2, FAM173A, LOC100190315, LOC100190316, RPL26L1, SEP15, LOC100190319, PTGES3L, LOC100190321, MGST1, HMOX2, BAMBI, LOC100190325, LOC100190326, CREBL2, VOPP1, MRPS22, SOD2, EIF3J, MRPL20, CCDC134, TBCA, LOC100190335, LOC100190336, LAMTOR3, CZH18orf32, NDUFB5, LOC100190340, NPM1, VSNL1, IFT20, LOC100190344, C5H14orf166, LOC100190346, PRDX1, LOC100190348, DYNLL1, NDUFV2, LOC100190351, LOC100190352, SRI, FAM133B, LOC100190355, LOC100190356, LOC100190357, ATG101, CHCHD10, LOC100190360, HRAS, SNRNP35, RPL27A, GMPPB, OST4, TXN, DNAJA1, LOC100190368, MRPL28, TVP23A, POMP, YIPF3, LOC100190373, FAM104A, LOC100190375, LOC100190376, CHCHD3, LOC100190378, MINOS1, LOC100190380, LOC100190381, PSMA7, APOA1BP, HMGN3, C8H1orf123, RHOA, MYL6, ARPP19, RMDN1, CIRBP, LOC100190391, NDUFA10, LOC100190393, LOC100190394, PFDN1, UQCR10, TMSB15B, LOC100190398, CALM1, VAPB, MED31, RNF11, B2M, FRG1, IFT43, GABARAPL2, LAPTM4A, KIAA1715, NTS, LOC100190410, RPL5, NDUFA6, TMEM208, LOC100190416, DSTN, ORC6, RAB14, IFI6, RER1, GPX4, C23H1orf109, NDUFS7, MRPL23, DRG1, EMC4, LOC100190429, DBI, MRPS33, SEPT6, PRELID1, ATP5C1, LOC100190436, CHMP5, LOC100190438, LOC100190439, LOC100190440, SEC11A, LOC100190442, LOC100190443, LRRC73, SELT, BASP1, BRI3BP, TIMM17A, LOC100190450, HRASLS, ARL6IP1, NUDT21, LDHB, GHITM, SULT4A1, MXD4, FKBP3, LOC100190459, LOC100190460, LOC100190461, LOC100190462, EIF2S2, CAMK2N1, POLR2J, LOC100190466, LOC100190467, TMEM167A, LOC100190469, CKB, TUSC3, ADRM1, LOC100190473, LOC100190474, LOC100190475, TMEM159, LOC100190477, STMN1, LOC100190479, FAM213A, LOC100190481, CTSB, LOC100190483, MDH2, FAM32A, DCTN3, TCEA2, THY1, NDUFA11, CWC15, LOC100190491, LOC100190492, SAR1B, HBAA, C5H14orf1, EDF1, LOC100190497, OAZ1, DNAL4, INIP, MRPL14, HSBP1, LOC100190503, ATP5L, LOC100190505, PARK7, LOC100190507, AP3S2, ARPC2, LOC100190510, LOC100190511, CAPZB, HSPE1, BCAS2, FTH1, PRADC1, SCAMP5, CISD1, MAP1LC3B, MLF2, LOC100190521, ATP6V1F, ATP5O, ROMO1, LOC100190525, PSMB4, LOC100190527, ATP6V0B, CALM2, PPIB, PPP2CB, JAGN1, LOC100190533, LOC100190534, PTS, DCTN5, UBE2N, LOC100190538, ATP6V1G1, PSMD7, LOC100190541, PPA1, NSDHL, ITM2A, PPID, STMN2, MYEOV2, PDAP1, PRDX6, LOC100190550, GET4, LSM5, SRP19, PPIC, SAT1, ARL1, SERF2, SNX24, RPS23, GNG12, LOC100190561, LOC100190562, EIF1, RPL8, PIN4, MAGOH, LOC100190568, SEPT11, TMEM50A, SURF2, RPL15, LOC100190573, NDUFAF4, LOC100190576, PCNA, LOC100190578, SSBP1, TMEM120B, CSRP2, RPRD1B, DNAJC17, LOC100190585, RAB6A, NSMCE1, LOC100190588, NSFL1C, PEBP1, LOC100190591, LOC100190592, LOC100190593, LOC100190594, LOC100190595, DGCR6L, SSB, TATDN3, LOC100190600, CETN3, LOC100190602, SNRPD1, LSM4, LOC100190605, LOC100190607, NOL12, EIF2B2, NQO2, LOC100190611, NDOR1, AIFM2, SDF2L1, ELOVL2, DNAJB13, SCARB2, SNRPB, ZFYVE21, MOB3A, LOC100190621, LOC100190622, APRT, BTF3L4, SNRPA1, MRPL22, NIPSNAP1, LOC100190628, MAP1LC3A, LOC100190630, GTF2A2, AGPAT5, FABP5, SLC25A27, LOC100190635, GAPDH, LOC100190637, CRH, FN3KRP, NDUFB6, BAG2, SDHB, PKIG, RPL39, EIF3H, DIABLO, RPL21, RNF121, LOC100190649, RGS20, SRSF3, MED30, ACBD7, MRPS23, ALG2, LOC100190656, LOC100190657, RPS17, MRPL19, GPX1, GLO1, GNG13, ARL3, MGST3, MED6, PFDN4, LOC100190667, EIF2S1, TPM4, LOC100190671, EIF3I, GNPTG, LOC100190674, RPL23A, DYNC1I1, LOC100190677, SLC25A33, LOC100190679, RAB1A, UBE2B, IDH3A, LOC100190683, BTBD10, UTP11L, TIMM22, CACYBP, CFAP36, RPL6, CHCHD2, LOC100190693, LOC100190694, MRPS14, LOC100190696, LOC100190698, LOC100190699, LOC100190700, LOC100190701, MED21, PSMC5, LOC100190705, LOC100190706, CCDC28A, PSMA2, LHPP, LOC100190710, LOC100190711, RAB5C, EBAG9, PSMA3, PVALB, PRKRIP1, LOC100190718, ATP1A1, TTR, MRPS25, LOC100190722, DTD1, NDUFB4, MBP, ANAPC13, FAM192A, LOC100190729, LOC100190730, LOC100190731, SOD1, ATF4, VPS29, SNRNP27, PPIA, SNRPD3, LOC100190738, LOC100190739, NDUFB8, HNRNPDL, LOC100190742, LOC100190743, MRPS11, YWHAH, PSMB1, USMG5, GJB1, MED9, PPP1CC, TMSB4X, LOC100190753, TRAPPC2, PAK1, LOC100190756, NME2, TSPAN13, LOC100190759, FANCL, NDUFS4, PLLP, LOC100192321, TPM1, SPCS2, JCHAIN, LOC100217561, TOMM22, C11H19orf40, DCPS, P2RX6, PCP4, MIS18A, PER3, LOC100217854, XPA, GOSR2, TAF12, YRDC, LOC100217987, AARS, RPS27A, LOC100218080, PON2, TMEM258, MEA1, RHOBTB3, LOC100218287, NACA, UQCRH, EBNA1BP2, LOC100218354, LOC100218385, SCP2, COQ9, TM2D1, TMEM261, SVIP, HSPD1, XRCC2, LOC100218607, C2H18orf21, TIAL1, MTUS2, MALSU1, SMIM19, IGFBP7, GNB1, FAN1, IMP3, LOC100218838, LOC100218849, LOC100218913, TRIAP1, DOK7, SMIM20, C1AH12orf66, TAGLN3, NAPB, MRPL33, TBC1D9, RPL29, SYBU, LOC100219238, CNBP, LOC100219261, LOC100219288, ECHS1, LOC100219421, NHP2, LOC100219516, PDCD2L, C3H17orf59, RPS19BP1, PANX1, HTRA1, PNISR, AURKAIP1, PAIP2, CCDC109B, COX7B, LASP1, CETN2, CLK2, LOC100219971, ARF6, CTSA, PSMD1, SETD5, BNIP3, SNCG, IL4R, NDRG4, LOC100220295, ABRACL, PRR18, TTC1, LYRM9, FAM163B, LOC100220509, LOC100220528, LOC100220538, MGP, LOC100220586, NDUFA12, NPTN, ZBTB18, LOC100220663, LRRC59, METTL23, FA2H, ADD1, LOC100220927, ADAM22, PSMC3, LOC100221093, MRPS35, TNIK, RPL7, C17H9orf69, FAM3C, NSUN4, BUD31, RCN2, DISC1, LOC100221326, ATP5G1, RPL32, MSRA, ACAT1, ITM2B, NHP2L1, LOC100221533, ATP6V0C, LOC100221561, LOC100221586, HNRNPU, RAB33A, LOC100221679, ITGA6, PALM2, LOC100221757, TBL1X, EXOSC1, COX6A1, SMIM15, RPLP2, LOC100221905, C8H1orf21, LOC100221944, LOC100221947, PBX3, LOC100222067, TXNRD3, MRPS28, TCTEX1D1, GTF2H5, SSU72, LOC100222254, SHPRH, PRRG3, NFYB, APLP2, GJB2, TRAPPC4, MRPS12, TDP2, ZNF830, LOC100222521, LOC100222537, UBALD1, LYSMD2, RNPC3, OSTC, LOC100222640, FAM107A, LOC100222722, YDJC, POP5, PAM16, ARGLU1, LOC100222856, HARBI1, UCHL5, TNNT3, TSEN15, RPL35A, EMG1, IMPAD1, COX6C, RPL13A, DRG2, RPF1, KIAA0895L, MRPL57, LOC100223433, HDAC11, LOC100223534, CYCS, LOC100223567, DDIT4, C4AHXorf56, MLF1, OARD1, ATP5G3, RAP1B, RPS12, ARG2, SNX21, NOVA1, RTF1, LOC100224000, PRDX4, LOC100224235, UQCR11, LOC100224285, LOC100224288, C28H19orf70, LOC100224354, HINT3, OLFM1, LOC100224376, TMEM141, DDRGK1, MRPL50, OAZ2, H3F3B, UPF3A, NDUFC1, LOC100224867, SRP14, DBNDD2, LOC100224943, ID2, SLC39A11, BAP1, PSMA5, HEXB, MLC1, CCNYL1, CALN1, C13H5orf45, DENND2A, UCHL3, TXN2, LRRC3B, TRA2A, H2AFV, LOC100225503, EIF2B1, PPP2R2C, ATP5J, H3F3A, DOK5, CSTB, HDGF, UBE2Q1, LOC100225991, APOO, EPS15, GCSH, AIMP2, C7H2orf47, SDF2, RPS14, LOC100226213, GTF3A, REXO2, LOC100226305, CAB39L, LOC100226437, MAD2L2, LOC100226448, EEF2KMT, ELP6, COMMD10, MARCH7, NDUFB1, C5H11orf74, LOC100226809, ASB3, LOC100226910, LOC100226911, LOC100226959, PTMA, RPS8, LOC100227202, UBB, NDUFB2, TM4SF19, PSMB6, C1AH7orf73, MTFMT, TMEM196, HOMER2, PTRHD1, PSMD11, LOC100227516, RGMB, NDUFA1, LOC100227575, PCCA, URI1, ZNF593, SDHAF3, POLR2L, SPTBN1, RPP38, MTIF2, TAC1, LOC100227800, MRPL51, HAX1, YBX3, MKRN2OS, RPS20, LOC100227982, ZMAT4, NEFL, POLR2G, OVCA2, ATP5D, PHF5A, U2SURP, CEP126, NDUFAB1, LOC100228355, LOC100228369, TMA16, TMEM177, ST8SIA5, MRPL27, LOC100228474, ISCA1, LOC100228523, SOD3, LOC100228572, MED28, CCDC59, LOC100228612, ARID4A, NRXN1, SETD3, ACYP1, LOC100228726, PPP2CA, LOC100228752, LOC100228776, EMC2, LOC100228799, TAF11, WASL, COX7C, EIF3F, CD74, ZNHIT3, PPP3R1, EEF1D, SIK2, LOC100229194, KCNAB2, FAM98A, ECI1, LUC7L, ANKMY2, RPL27, CHN1, GLUL, CMBL, MRPS9, ZDHHC22, SDE2, IFITM10, COX7A2, LOC100229710, EPB41L3, LOC100229760, RAD54L2, PINK1, PPCDC, LOC100229898, C2H6orf52, JUN, EPN2, SPINK9, LOC100230048, LOC100230132, SMAP2, YTHDC1, PSIP1, LOC100230201, SCG3, RABL3, FAAH2, LOC100230361, KIAA0232, RGN, HSCB, LOC100230565, MKKS, NCAPD2, SMURF2, C26H1orf74, LOC100230733, FAM131B, TPMT, TSR3, RPA1, RHPN1, LYRM2, ING5, LOC100231110, TMPO, C1H11orf70, NUBP1, SLC23A1, ANAPC16, PDHB, SLC25A14, MRPS7, HIGD1A, LOC100231405, GATC, MRPL34, GNMT, HJURP, LOC100231554, HEBP2, MRRF, FAM20C, BEND5, NDUFV3, RPS2, SIN3A, LOC100231891, LOC100231893, NDUFB3, PNO1, CSTF3, WDR33, TSTD3, ACOT7, LOC100232181, SIL1, NTAN1, MATR3, CTDSPL, ATP5H, MRPL40, RGS4, ANAPC15, CTSD, TALDO1, LMO2, ARSG, LOC100232722, RPS7, KCND2, DDT, PGD, UBE2V1, LOC101232858, NDUFAF2, TMEM218, LOC101232916, MYL1, LOC101232963, LOC101233028, TUSC5, LOC101233072, TMCO1, MTERF4, LOC101233158, LOC101233264, FABP3, LOC101233349, LOC101233411, MARCKS, LOC101233424, LOC101233465, LOC101233547, RSRP1, LOC101233590, MXRA7, LOC101233684, NRN1L, LOC101233753, MYCBP, LOC101233815, LOC101233878, LOC101233895, CHCHD1, LOC101233937, LOC101233971, LOC101234003, ATP5E, LOC101234054, LOC101234101, LOC101234107, LOC101234119, LOC101234130, RFXANK, LOC101234133, TMEM18, C5H14orf2, LOC101234143, LOC101234174, LOC101234176, LOC101234211, IFT22, LOC105758502, LOC105758503, LOC105758528, LOC105758541, LOC105758558, SMDT1, LOC105758573, LOC105758575, LOC105758648, LOC105758665, LOC105758684, LOC105758732, LOC105758795, NDUFS5, MRPS15, LOC105758863, LOC105758912, LOC105758982, LOC105758996, LOC105758998, LOC105759012, LOC105759036, LOC105759075, LOC105759092, LOC105759097, LOC105759129, LOC105759170, LOC105759192, LOC105759222, MGAT2, AKAP5, C6H10orf32, BBIP1, LOC105759473, CAMK2N2, NDUFA4L2, LOC105760096, LOC105760103, LOC105760244, LOC105760489, TMEM223, LOC105760518, PFDN6, LOC105760689, LOC105760825, C10H15orf40, LOC105760844, LOC105760866, GRP, NMB, LOC105760925, DPM2, LOC105760982, LOC105760995, LOC105761000, SNCA, UCHL1, GRIA2, GRIN2B, GRM3, HINT1, SNAP25, RPL37, RPL17
Sample name | Organism | Experiment title | Sample type | Library instrument | Attributes | |||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
{{attr}} | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
{{ dataList.sampleTitle }} | {{ dataList.organism }} | {{ dataList.expermentTitle }} | {{ dataList.sampleType }} | {{ dataList.libraryInstrument }} | {{ showAttributeName(index,attr,dataList.attributes) }} |
{{ list.authorName }} {{ list.authorName }} |