BAC Special Projects

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Following is the list of projects handled by the Arizona Genomics Institute as part of the BAC special projects.
Healthy People (Funded By:NIH, Grant #: U1HG02525A)
Drosophila (Funded By:NIH, Grant #: U1HG02525A)
Oryza BAC Library Project (Funded By:NSF, Grant #:0208329)
Green Plant BAC Library (Funded By:NSF, Grant #:0208502)

Universal Probes Project (Emory University School of Medicine): A genome-wide universal probe resource for comparative physical mapping in vertebrates. Details here.

Healthy People Project

Note: 1) Library names with hyperlinks, indicate whole libraries (or individual clones) are available for public distribution.
2) Please click on hyperlinked library name in order to purchase this library from the Orders site.
Genus Species Library / Orders Common Name Genome Size (Mb) Avg Insert Size (Kb) No. of Clones Hyb. FingerPrinting(FP) & Sequencing(Seq) QC Distributed by Status* Comments
 Tachyglossus  aculeatus  TA__Ba  echidna  3000  145  210048  Seq  AGI  5  -
 Ginglymostoma  cirratum  GC__Ba  shark  4000  130  313344  Seq | FP  AGI  7  -
 Macropus  eugenii  ME_KBa  wallaby  3500  166  239616  Seq | FP  AGI  7  -
 Biomphalaria  glabrata  BG_BBa  snail  931  144  61824  Seq | FP  AGI  7  The D filter will contain plates 145-161 and plates 1-31 again to fill the filter at 48 plates.
 Taeniopygia  guttata  TG__Ba  zebra finch  1900  134  147456  Seq | FP  AGI  7  -
 Rattus  norveigicus  RN__Ba  rat  3000  160  202752  Seq  AGI  5  Rat strain CDL ( F344) from Charles River Laboratories.
 Ornithorhynchus  anatinus  OA__Bb  Duck-billed Platypus  3000  143  230400  FP  CUGI  N/A  -
 Sorex  araneus  SA__Ba  European Common Shrew  3000  140  239616  FP  CUGI  N/A  -
 Crassotrea  gigas  CG__Ba  Pacific Oyster  900  150  73728  -  CUGI  N/A  -
 Papilio  glaucus  PG__Ba  ETS Butterfly  440  135  36864  -  CUGI  N/A  -
 Saccoglossus  kowalevskii  SK__Ba  Acorn Worm  1000  130  110592  -  CUGI  N/A  -
 Mus  Musculus  MM_DBa  Mouse  3000  143  215040  -  CUGI  N/A  -
 Ostrinia  nubilalis  ON__Ba  European Corn Borer  500  130  36864  -  CUGI  N/A  -
 Heliothis  subflexa  HS__Ba  Noctuid Moth  500  131  36864  -  CUGI  N/A  -
 Crassotrea  virginica  CV__Ba  Eastern Oyster  700  134  55296  -  CUGI  N/A  -
 Solenopsis  wagneri  SW__Ba  Fire Ant  800  132  73728  -  CUGI  N/A  -
 Thermobia  domestica  TD__Ba  Firebrat  5526  145  258048  Seq  AGI  5  -
* 1 - None, 2 - HMW DNA Prepared, 3 - Clones Picked, 4 - QC Sizing Done, 5 - QC Seq Done, 6 - QC FP Done, 7 - Completed.

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Drosophila

Note: 1) Library names with hyperlinks, indicate whole libraries (or individual clones) are available for public distribution.
2) Please click on hyperlinked library name in order to purchase this library from the Orders site.
Genus Species Library / Orders Common Name Genome Size (Mb) Avg Insert Size (Kb) No. of Clones Hyb. FingerPrinting(FP) & Sequencing(Seq) QC Distributed by Status* Comments
 Drosophila  albomicans  DA_BBa  fruit fly  193  146  18432  Seq  AGI  7  TSC# 15112-1751.08
 Drosophila  americana  DA_ABa  fruit fly  145  130  11520  Seq  AGI  7  TSC #15010-0951.15. Filter A will contain plates 1-30 and plates 1-18 again to fill the filter at 48 plates.
 Drosophila  ananassae  DA__Ba  fruit fly  376  150  36864  Seq | FP  AGI  7  TSC # 14024-0371.13. Stock center line AAbbg1. Drosophila line AAbbg1 from Muneo Matsuda. Cloned into BamHI.
 Drosophila  arizonae  DA_CBa  fruit fly  212  132  18432   Seq  AGI  7  TSC# 15081-1271.27
 Drosophila  busckii  DB__Ba  fruit fly  181  160  18432  Seq  AGI  7  TSC# 13000-0081.31
 Drosophila  erecta  DE_TBa  fruit fly  152  152  18432  Seq  AGI  7  TSC line#14021-0224.01
 Drosophila  grimshawi  DG__Ba  fruit fly  240  135  18432  Seq  AGI  7  TSC# 15287-2541.00
 Drosophila  hydei  DH__Ba  fruit fly  391  150  36864  Seq  AGI  7  TSC# 15085-1641.58
 Drosophila  littoralis  DL__Ba  fruit fly  362  160  36864  Seq  AGI  7  TSC# 15010-1001.11
 Drosophila  mercatorum  DM__Ba  fruit fly  169  150  18432  Seq  AGI  7  TSC #15082-1521.36
 Drosophila  mojavensis  DM_CBa  fruit fly  376  140  30720  Seq  AGI  7  TSC # 15081-1352.22. Stock center line CI-12 IB4. Cloned into BamHI. Filter B will contain plates 49-80 and plates 1-16 again to fill the filter at 48 plates.
 Drosophila  novamexicana  DN__Ba  fruit fly  155  160  13440  Seq  AGI  7  TSC# 15010-1031.14
 Drosophila  persimilis  DP__Ba  fruit fly  176  150  18432  Seq  AGI  7  TSC# 14011-0111.49
 Drosophila  repleta  DR__Ba  fruit fly  376  130  36864  Seq  AGI  7  TSC# 15084-1611.10
 Drosophila  sechellia  DS__Ba  fruit fly  169  140  18432  Seq  AGI  7  TSC # 14021-0248.25
 Drosophila  simulans  DS_ABa  fruit fly  145  152  18432  Seq  AGI  7  TSC# 14021-0251.195, inbred from simW501
 Drosophila  virilis  DV_VBa  fruit fly  753  150  55296  Seq  AGI  7  TSC # 15010-1051.87. (line V46, donated by Bryant McAllister.) Plates 1-96 are 150kb inserts, plates 97-144 are 110kb inserts. Fly DNA digested with BstYI and cloned into the BamHI site of vector.
 Drosophila  willistoni  DW__Ba  fruit fly  250.5  140  18432  Seq  AGI  7  TSC# 14030-0811.24
 Drosophila  yakuba  DY__Ba  fruit fly  164  150  11520  Seq  AGI  7  TSC# 14021-0261.01 Filters will contain plates 1-30 then be duplicate plates 1-18 to fill to 48 plates.
* 1 - None, 2 - HMW DNA Prepared, 3 - Clones Picked, 4 - QC Sizing Done, 5 - QC Seq Done, 6 - QC FP Done, 7 - Completed.

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Oryza BAC Library Project

Note: 1) Library names with hyperlinks, indicate whole libraries (or individual clones) are available for public distribution.
2) Please click on hyperlinked library name in order to purchase this library from the Orders site.
Genus Species Genome Designation Library / Orders Common Name Genome Size (Mb) Avg Insert Size (Kb) No. of Clones Hyb. FingerPrinting(FP) & Sequencing(Seq) QC Country of Origin Status* Comments
 Oryza  australiensis  EE  OA_CBa  rice  960  152  73728  Seq  Australia  7  EE genome (OMAP); IRGC accession # 100882; This library does not contain contaminating clones of other genomes.
 Oryza  rufipogon  AA  OR_CBa  rice  439  133  64512  Seq | FP  Malaysia  7

 AA genome (OMAP); Accession #IRGC 105491; perennial type; source DNA from S. McCouch. The D filter will contain plates 145-168 and plates 1-24 again to fill the filter at 48 plates.

 Oryza  rufipogon  AA  OR__Ba  rice  450  134  92160  Seq  Vietnam  7  AA genome, germplasm accession IRGC #106424, perennial (other) type; source DNA from IRRI;
 Oryza  sativa indica  AA  OSi9Ba  rice  450  143  36864 -  -  7  AA genome, germplasm accession 93-11.
 Oryza  barthii  AA  OB_ABa  rice  400  136  36864  -  -  7  AA genome, germplasm accession IRGC #105608.
 Oryza  glumaepatula  AA  OG_GBa  rice  400  130 36864 - -  7  AA genome, germplasm accession GEN1233.
 Oryza  longistaminata  AA  OL_ABa  rice  400  126  36864 -  -  7  AA genome, germplasm accession IRGC #110404.
 Oryza meridionalis  AA  OM_ABa  rice  400  145  36864  -  -  7  AA genome, germplasm accession OR44 (W2112).
 Oryza  nivara  AA  OR_BBa  rice  448  161  55296  Seq | FP  India  7  IRGC accession 100897. AA genome (OMAP)annual type: W0106; source DNA from N. Kurata; May be called O. nivara.
 Oryza  glaberrima  AA  OG_BBa  rice  354  130  55296  Seq | FP  Africa  7  AA genome (OMAP), IRGC accession # 96717 (variety name CG14); source DNA from IRRI
 Oryza  punctata  BB  OP__Ba  rice  423  141  36864  Seq | FP  Africa  7  BB genome (OMAP), IRGC accession # 105690; source DNA from IRRI;
 Oryza  minuta  BBCC  OM__Ba  rice  1124  124  129024  Seq | FP  Philippines  7  BBCC genome (OMAP), IRGC accession # 101141; source DNA from IRRI;
 Oryza  officinalis  CC  OO__Ba  rice  653  140  92160  Seq | FP  Thailand  7  CC genome (OMAP), IRGC accession # 100896; source DNA from IRRI; there are extra 12 plates
 Oryza  alta  CCDD  OA_BBa  rice  1000  132  92160  Seq | FP  S. America  7  CCDD genome (OMAP); IRGC accession # 105143; source DNA from IRRI;
 Oryza  australiensis  EE  OA_ABa  rice  960  152  92160  Seq | FP  Australia  7  EE genome (OMAP); IRGC accession # 100882; source DNA from N. Kurata. We have detected other genome clones in this library.

 Oryza  brachyantha  FF  OB__Ba  rice  338  130  36864  Seq | FP  Africa  7  FF genome (OMAP), accession# 101232; source DNA from IRRI;
 Oryza  granulata  GG  OG_ABa  rice  862  133  73728  Seq | FP  Thailand  7  GG genome (OMAP), IRGC accession # 102118; source DNA from IRRI;
 Oryza  ridleyi  HHJJ  OR_ABa  rice  1283  126  129024  Seq | FP  Thailand  7  HHJJ genome (OMAP), IRGC accession # 100821; source DNA from IRRI;
 Oryza  coarctata  HHKK  OC__Ba  rice  1283  122  147456  Seq | FP  Bangladesh  7  HHKK genome (OMAP), IRGC accession # 104502; source DNA from IRRI;
* 1 - None, 2 - HMW DNA Prepared, 3 - Clones Picked, 4 - QC SizingDone, 5 - QC Seq Done, 6 - QC FP Done, 7 - Completed.

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Green Plant BAC Library Project
(visit
www.greenbac.org for more details)

Note: 1) Library names with hyperlinks, indicate whole libraries (or individual clones) are available for public distribution.
2) Please click on hyperlinked library name in order to purchase this library from the Orders site.
Genus Species Library / Orders Common Name Genome Size (Mb) Avg Insert Size (Kb) No. of Clones Hyb. FingerPrinting(FP) & Sequencing(Seq) QC Distributed by Status* Comments
Green Algae
 Chara  braunii  CS__Ba  alga, with sexual cells  2193  -  -  -  CUGI  1  HindIII
 Caulerpa  taxifolia  CT__Ba  alga, multinucleate  -  -  -  -  CUGI  1  HindIII
 Coleochaete  orbicularis  CO__Ba  alga, multicellular  94  -  18432  -  CUGI  4  HindIII
 Coleochaete  orbicularis  CO__Bb  alga, multicellular  94  160  18432  -  CUGI  4  BstyI
 Coleochaete  orbicularus  CO__Sa  alga, multicellular  94  3  3072  -  AGI  7  sheared genomic DNA
 Mesostigma  viride  MV__Bb  alga, unicellular  100  145  18432  Seq  AGI  4  HindIII
 Mesostigma  viride  MV__Sa  alga, unicellular  100  3  3072  -  AGI  7  sheared genomic DNA
 Volvox  carteri  VCNEBa  alga, colonial  120  133  9216  Seq  AGI  4  HindIII
 Volvox  carteri  VCNEBb  alga, colonial  120  131  9216  Seq  AGI  4  BamHI
 Volvox  carteri  VCNESa  alga, colonial  120  2  3072  -  AGI  7  sheared genomic DNA
Non seed Land plants
 Angiopteris  erecta  AE__Ba  tree(king)fern  6464  -  -  -  CUGI  1  HindIII and BamHI
 Ceratopteris  richardii  CR__Ba  Water Sprite - Fern  11294  130  331776  -  CUGI  4  HindIII
 Marchantia  polymorpha  MP__Ba  liverwort  380  140  36864  -  CUGI  4  BstyI
 Marchantia  polymorpha  MP__Sa  liverwort  450  3  3072  -  AGI  7  sheared genomic DNA
 Marselia  minuta  MM__Ba  water clover  1013  -  -  -  CUGI  1  HindIII and BamHI
 Selaginella  moellendorfii  SM__Ba  shining club moss  132  123  9216  Seq  AGI  7  HindIII
 Selaginella  moellendorfii  SM__Sa  shining club moss  132  2  3072  -  AGI  7  sheared genomic DNA
Seeds plants
 Acorus  americanus  AA__Ba  sweet flag  400  130  55296  Seq  AGI  7  HindIII
 Acorus  americanus  AA__Sa  sweet flag  400  2  3072  -  AGI  7  sheared genomic DNA
 Amborella  trichopoda  AT_SBa  amborella  900  123  36864  Seq  AGI  7  HindIII
 Amborella  trichopoda  AT__Sa  amborella  900  2  1536  -  AGI  7  sheared genomic DNA
 Liriodendron  tulipifera  LT__Ba  Tulip Poplar  1800  113  73728  -  CUGI  7  HindIII
 Liriodendron  tulipifera  LT__Sa  liriodendron  1800  3  3072  -  AGI  7  sheared genomic DNA
 Mimulus  guttatus  MG__Ba  Monkeyflower  860  127  36864  -  CUGI  4  HindIII
 Nuphar  advena  NA__Ba  waterlily  3040  135  165888  Seq  AGI  7  HindIII
* 1 - None, 2 - HMW DNA Prepared, 3 - Clones Picked, 4 - QC Sizing Done, 5 - QC Seq Done, 6 - QC FP Done, 7 - Completed.

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