Difference between revisions of "Bird CoGe"

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! scope="col" | English Name<br>
 
! scope="col" | English Name<br>
 
! scope="col" | BioProject ID<br>
 
! scope="col" | BioProject ID<br>
! scope="col" | GigaScience<br>
+
! scope="col" | Genome Links<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101015 Acanthisitta chloris]<br>
 
| [http://dx.doi.org/10.5524/101015 Acanthisitta chloris]<br>
 
| Rifleman<br>
 
| Rifleman<br>
 
| PRJNA212877<br>
 
| PRJNA212877<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16755 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16760 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101001 Anas platyrhynchos]<br>
 
| [http://dx.doi.org/10.5524/101001 Anas platyrhynchos]<br>
 
| Peking Duck<br>
 
| Peking Duck<br>
 
| PRJNA46621<br>
 
| PRJNA46621<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16807 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16810 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101019 Antrostomus carolinensis]<br>
 
| [http://dx.doi.org/10.5524/101019 Antrostomus carolinensis]<br>
 
| Chuck-will's-widow<br>
 
| Chuck-will's-widow<br>
 
| PRJNA212888<br>
 
| PRJNA212888<br>
| <br>
+
| N/A<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101016 Apaloderma vittatum]<br>
 
| [http://dx.doi.org/10.5524/101016 Apaloderma vittatum]<br>
 
| Bar-tailed Trogon<br>
 
| Bar-tailed Trogon<br>
 
| PRJNA212878<br>
 
| PRJNA212878<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16766 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16778 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/100005 Aptenodytes forsteri]<br>
 
| [http://dx.doi.org/10.5524/100005 Aptenodytes forsteri]<br>
 
| Emperor Penguin<br>
 
| Emperor Penguin<br>
 
| PRJNA235982<br>
 
| PRJNA235982<br>
| <br>
+
| N/A<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101017 Balearica regulorum]<br>
 
| [http://dx.doi.org/10.5524/101017 Balearica regulorum]<br>
 
| Grey crowned-crane<br>
 
| Grey crowned-crane<br>
 
| PRJNA212879<br>
 
| PRJNA212879<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16765 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16776 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101018 Buceros rhinoceros]<br>
 
| [http://dx.doi.org/10.5524/101018 Buceros rhinoceros]<br>
 
| Rhinoceros Hornbill<br>
 
| Rhinoceros Hornbill<br>
 
| PRJNA212887<br>
 
| PRJNA212887<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16762 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16786 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101004 Calypte anna]<br>
 
| [http://dx.doi.org/10.5524/101004 Calypte anna]<br>
 
| Anna's Hummingbird<br>
 
| Anna's Hummingbird<br>
 
| PRJNA212866<br>
 
| PRJNA212866<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16832 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16834 Masked]<br>
 +
|-
 +
| [Caprimulgus carolinensis]<br>
 +
| Nightjar<br>
 +
| N/A<br>
 +
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16825 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16831 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101020 Cariama cristata]<br>
 
| [http://dx.doi.org/10.5524/101020 Cariama cristata]<br>
 
| Red-legged Seriema<br>
 
| Red-legged Seriema<br>
 
| PRJNA212889<br>
 
| PRJNA212889<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16763 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16777 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101021 Cathartes aura]<br>
 
| [http://dx.doi.org/10.5524/101021 Cathartes aura]<br>
 
| Turkey Vulture<br>
 
| Turkey Vulture<br>
 
| PRJNA212890<br>
 
| PRJNA212890<br>
| <br>
+
| N/A<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101005 Chaetura pelagica]<br>
 
| [http://dx.doi.org/10.5524/101005 Chaetura pelagica]<br>
 
| Chimney Swift<br>
 
| Chimney Swift<br>
 
| PRJNA210808<br>
 
| PRJNA210808<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16813 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16815 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101007 Charadrius vociferus]<br>
 
| [http://dx.doi.org/10.5524/101007 Charadrius vociferus]<br>
 
| Killdeer<br>
 
| Killdeer<br>
 
| PRJNA212867<br>
 
| PRJNA212867<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16843 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16846 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101022 Chlamydotis macqueenii]<br>
 
| [http://dx.doi.org/10.5524/101022 Chlamydotis macqueenii]<br>
 
| MacQueen's Bustard<br>
 
| MacQueen's Bustard<br>
 
| PRJNA212891<br>
 
| PRJNA212891<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16774 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16767 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101023 Colius striatus]<br>
 
| [http://dx.doi.org/10.5524/101023 Colius striatus]<br>
 
| Speckled Mousebird<br>
 
| Speckled Mousebird<br>
 
| PRJNA212892<br>
 
| PRJNA212892<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16768 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16775 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/100007 Columba livia]<br>
 
| [http://dx.doi.org/10.5524/100007 Columba livia]<br>
 
| Pigeon<br>
 
| Pigeon<br>
 
| PRJNA167554<br>
 
| PRJNA167554<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16764 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16773 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101008 Corvus brachyrhynchos]<br>
 
| [http://dx.doi.org/10.5524/101008 Corvus brachyrhynchos]<br>
 
| American Crow<br>
 
| American Crow<br>
 
| PRJNA212869<br>
 
| PRJNA212869<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16816 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16818 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101009 Cuculus canorus]<br>
 
| [http://dx.doi.org/10.5524/101009 Cuculus canorus]<br>
 
| Common Cuckoo<br>
 
| Common Cuckoo<br>
 
| PRJNA212870<br>
 
| PRJNA212870<br>
| <br>
+
| N/A<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101002 Egretta garzetta]<br>
 
| [http://dx.doi.org/10.5524/101002 Egretta garzetta]<br>
 
| Little Egret<br>
 
| Little Egret<br>
 
| PRJNA232959<br>
 
| PRJNA232959<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16821 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16822 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101024 Eurypyga helias]<br>
 
| [http://dx.doi.org/10.5524/101024 Eurypyga helias]<br>
 
| Sunbittern<br>
 
| Sunbittern<br>
 
| PRJNA212893<br>
 
| PRJNA212893<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16779 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16784 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101006 Falco peregrinus]<br>
 
| [http://dx.doi.org/10.5524/101006 Falco peregrinus]<br>
 
| Peregrine Falcon<br>
 
| Peregrine Falcon<br>
 
| PRJNA159791<br>
 
| PRJNA159791<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16780 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16781 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101025 Fulmarus glacialis]<br>
 
| [http://dx.doi.org/10.5524/101025 Fulmarus glacialis]<br>
 
| Northern Fulmar<br>
 
| Northern Fulmar<br>
 
| PRJNA212894<br>
 
| PRJNA212894<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16782 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16790 Masked]<br>
 
|-
 
|-
 
| [http://www.ensembl.org/Gallus_gallus/Info/Index Gallus gallus]<br>
 
| [http://www.ensembl.org/Gallus_gallus/Info/Index Gallus gallus]<br>
 
| Chicken<br>
 
| Chicken<br>
 
| PRJNA13342<br>
 
| PRJNA13342<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19536 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19540 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101026 Gavia stellata]<br>
 
| [http://dx.doi.org/10.5524/101026 Gavia stellata]<br>
 
| Red-throated Loon<br>
 
| Red-throated Loon<br>
 
| PRJNA212895<br>
 
| PRJNA212895<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16785 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16793 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/100040 Geospiza fortis]<br>
 
| [http://dx.doi.org/10.5524/100040 Geospiza fortis]<br>
 
| Medium Ground-finch<br>
 
| Medium Ground-finch<br>
 
| PRJNA156703<br>
 
| PRJNA156703<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16835 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16836 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101027 Haliaeetus albicilla]<br>
 
| [http://dx.doi.org/10.5524/101027 Haliaeetus albicilla]<br>
 
| White-tailed Eagle<br>
 
| White-tailed Eagle<br>
 
| PRJNA212896<br>
 
| PRJNA212896<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16826 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16829 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101040 Haliaeetus leucocephalus]<br>
 
| [http://dx.doi.org/10.5524/101040 Haliaeetus leucocephalus]<br>
 
| Bald Eagle<br>
 
| Bald Eagle<br>
 
| PRJNA237821<br>
 
| PRJNA237821<br>
| <br>
+
| N/A<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101028 Leptosomus discolor]<br>
 
| [http://dx.doi.org/10.5524/101028 Leptosomus discolor]<br>
 
| Cuckoo-roller<br>
 
| Cuckoo-roller<br>
 
| PRJNA212897<br>
 
| PRJNA212897<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16830 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16833 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101010 Manacus vitellinus]<br>
 
| [http://dx.doi.org/10.5524/101010 Manacus vitellinus]<br>
 
| Golden-collared Manakin<br>
 
| Golden-collared Manakin<br>
 
| PRJNA212872<br>
 
| PRJNA212872<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19537 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19544 Masked]<br>
 
|-
 
|-
 
| [http://www.ensembl.org/Meleagris_gallopavo/Info/Index Meleagris gallopavo]<br>
 
| [http://www.ensembl.org/Meleagris_gallopavo/Info/Index Meleagris gallopavo]<br>
 
| Turkey<br>
 
| Turkey<br>
 
| PRJNA42129<br>
 
| PRJNA42129<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19534 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19542 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/100059 Melopsittacus undulatus]<br>
 
| [http://dx.doi.org/10.5524/100059 Melopsittacus undulatus]<br>
 
| Budgerigar<br>
 
| Budgerigar<br>
 
| PRJEB1588<br>
 
| PRJEB1588<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16823 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16824 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101029 Merops nubicus]<br>
 
| [http://dx.doi.org/10.5524/101029 Merops nubicus]<br>
 
| Carmine Bee-eater<br>
 
| Carmine Bee-eater<br>
 
| PRJNA212898<br>
 
| PRJNA212898<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19535 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19543 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101030 Mesitornis unicolor]<br>
 
| [http://dx.doi.org/10.5524/101030 Mesitornis unicolor]<br>
 
| Brown Mesite<br>
 
| Brown Mesite<br>
 
| PRJNA212899<br>
 
| PRJNA212899<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16817 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16820 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101031 Nestor notabilis]<br>
 
| [http://dx.doi.org/10.5524/101031 Nestor notabilis]<br>
 
| Kea<br>
 
| Kea<br>
 
| PRJNA212900<br>
 
| PRJNA212900<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16789 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16792 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101003 Nipponia nippon]<br>
 
| [http://dx.doi.org/10.5524/101003 Nipponia nippon]<br>
 
| Crested ibis<br>
 
| Crested ibis<br>
 
| PRJNA232572<br>
 
| PRJNA232572<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16791 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16795 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101011 Ophisthocomus hoazin]<br>
 
| [http://dx.doi.org/10.5524/101011 Ophisthocomus hoazin]<br>
 
| Hoatzin<br>
 
| Hoatzin<br>
 
| PRJNA212873<br>
 
| PRJNA212873<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16839 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16840 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101032 Pelecanus crispus]<br>
 
| [http://dx.doi.org/10.5524/101032 Pelecanus crispus]<br>
 
| Dalmatian Pelican<br>
 
| Dalmatian Pelican<br>
 
| PRJNA212901<br>
 
| PRJNA212901<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16794 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16796 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101033 Phaethon lepturus]<br>
 
| [http://dx.doi.org/10.5524/101033 Phaethon lepturus]<br>
 
| White-tailed Tropicbird<br>
 
| White-tailed Tropicbird<br>
 
| PRJNA212902<br>
 
| PRJNA212902<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16797 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16801 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101034 Phalacrocorax carbo]<br>
 
| [http://dx.doi.org/10.5524/101034 Phalacrocorax carbo]<br>
 
| Great Cormorant<br>
 
| Great Cormorant<br>
 
| PRJNA212903<br>
 
| PRJNA212903<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16798 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16800 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101035 Phoenicopterus ruber]<br>
 
| [http://dx.doi.org/10.5524/101035 Phoenicopterus ruber]<br>
| American Flamingo<br>
+
| Caribbean Flamingo<br>
 
| PRJNA212904<br>
 
| PRJNA212904<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16799 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16803 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101012 Picoides pubescens]<br>
 
| [http://dx.doi.org/10.5524/101012 Picoides pubescens]<br>
 
| Downy Woodpecker<br>
 
| Downy Woodpecker<br>
 
| PRJNA212874<br>
 
| PRJNA212874<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16841 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16842 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101036 Podiceps cristatus]<br>
 
| [http://dx.doi.org/10.5524/101036 Podiceps cristatus]<br>
 
| Great Crested Grebe<br>
 
| Great Crested Grebe<br>
 
| PRJNA212905<br>
 
| PRJNA212905<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16806 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16814 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101037 Pterocles gutturalis]<br>
 
| [http://dx.doi.org/10.5524/101037 Pterocles gutturalis]<br>
 
| Yellow-throated Sandgrouse<br>
 
| Yellow-throated Sandgrouse<br>
 
| PRJNA212906<br>
 
| PRJNA212906<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16802 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16804 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/100006 Pygoscelis adeliae]<br>
 
| [http://dx.doi.org/10.5524/100006 Pygoscelis adeliae]<br>
 
| Adelie Penguin<br>
 
| Adelie Penguin<br>
 
| PRJNA235983<br>
 
| PRJNA235983<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16805 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16808 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101013 Struthio camelus]<br>
 
| [http://dx.doi.org/10.5524/101013 Struthio camelus]<br>
 
| Common Ostrich<br>
 
| Common Ostrich<br>
 
| PRJNA212875<br>
 
| PRJNA212875<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16809 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16811 Masked]<br>
 
|-
 
|-
 
| [http://www.ensembl.org/Taeniopygia_guttata/Info/Index Taeniopygia guttata]<br>
 
| [http://www.ensembl.org/Taeniopygia_guttata/Info/Index Taeniopygia guttata]<br>
 
| Zebra Finch<br>
 
| Zebra Finch<br>
 
| PRJNA17289<br>
 
| PRJNA17289<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19545 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=19546 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101038 Tauraco erythrolophus]<br>
 
| [http://dx.doi.org/10.5524/101038 Tauraco erythrolophus]<br>
 
| Red-crested Turaco<br>
 
| Red-crested Turaco<br>
 
| PRJNA212908<br>
 
| PRJNA212908<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16812 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16819 Masked]<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101014 Tinamus guttatus]<br>
 
| [http://dx.doi.org/10.5524/101014 Tinamus guttatus]<br>
 
| White-throated Tinamou<br>
 
| White-throated Tinamou<br>
 
| PRJNA212876<br>
 
| PRJNA212876<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=20275 Unmasked] Masked<br>
 
|-
 
|-
 
| [http://dx.doi.org/10.5524/101039 Tyto alba]<br>
 
| [http://dx.doi.org/10.5524/101039 Tyto alba]<br>
 
| Barn Owl<br>
 
| Barn Owl<br>
 
| PRJNA212909<br>
 
| PRJNA212909<br>
| <br>
+
| [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16759 Unmasked] [https://genomevolution.org/CoGe/GenomeInfo.pl?gid=16761 Masked]<br>
 
|}
 
|}
  

Revision as of 11:59, 5 December 2014

About the Project

CoGe is providing support for the Avian Phylogenomics Initiative. This group has sequenced genomes of over 50 avian species, including one species belonging to each major order. The goals of the project are to:

1) Perform phylogenomic analyses to decipher avian phylogeny;
2) Identify genetic changes as signatures of convergent selection, including in vocal learning species;
3) Sequence genomes of avian species that provide scientific value to the community, are national symbols, or endangered; and
4) Provide a public resource for scientist.

The project is partnered with other initiatives such as the Genome 10K (G10K) group to sequencing 10,000 vertebrate species in 10 years, a Copenhagen phylogenome group to decipher avian phylogeny, and the Beijing Genome Institute (BGI) to also decipher avian phylogeny and provide genomic resources. The project is coordinated by Erich Jarvis (Duke), Tom Gilbert (Copenhagen), and Goujie Zhang (BGI).

For select publications from this project, see References.

Available Resources

Genomes sequences for the following species are available, either as part of this project, or from other avian genome projects:

Table 1. Genomes used in the avian phylogenomics project. Listed are the scientific species name, English name, BioProject ID in the NCBI database for each genome (http://www.ncbi.nlm.nih.gov/bioproject), and GigaScience deposited genome sequences and raw reads. Full details are in references [1] and [2].
Species
English Name
BioProject ID
Genome Links
Acanthisitta chloris
Rifleman
PRJNA212877
Unmasked Masked
Anas platyrhynchos
Peking Duck
PRJNA46621
Unmasked Masked
Antrostomus carolinensis
Chuck-will's-widow
PRJNA212888
N/A
Apaloderma vittatum
Bar-tailed Trogon
PRJNA212878
Unmasked Masked
Aptenodytes forsteri
Emperor Penguin
PRJNA235982
N/A
Balearica regulorum
Grey crowned-crane
PRJNA212879
Unmasked Masked
Buceros rhinoceros
Rhinoceros Hornbill
PRJNA212887
Unmasked Masked
Calypte anna
Anna's Hummingbird
PRJNA212866
Unmasked Masked
[Caprimulgus carolinensis]
Nightjar
N/A
Unmasked Masked
Cariama cristata
Red-legged Seriema
PRJNA212889
Unmasked Masked
Cathartes aura
Turkey Vulture
PRJNA212890
N/A
Chaetura pelagica
Chimney Swift
PRJNA210808
Unmasked Masked
Charadrius vociferus
Killdeer
PRJNA212867
Unmasked Masked
Chlamydotis macqueenii
MacQueen's Bustard
PRJNA212891
Unmasked Masked
Colius striatus
Speckled Mousebird
PRJNA212892
Unmasked Masked
Columba livia
Pigeon
PRJNA167554
Unmasked Masked
Corvus brachyrhynchos
American Crow
PRJNA212869
Unmasked Masked
Cuculus canorus
Common Cuckoo
PRJNA212870
N/A
Egretta garzetta
Little Egret
PRJNA232959
Unmasked Masked
Eurypyga helias
Sunbittern
PRJNA212893
Unmasked Masked
Falco peregrinus
Peregrine Falcon
PRJNA159791
Unmasked Masked
Fulmarus glacialis
Northern Fulmar
PRJNA212894
Unmasked Masked
Gallus gallus
Chicken
PRJNA13342
Unmasked Masked
Gavia stellata
Red-throated Loon
PRJNA212895
Unmasked Masked
Geospiza fortis
Medium Ground-finch
PRJNA156703
Unmasked Masked
Haliaeetus albicilla
White-tailed Eagle
PRJNA212896
Unmasked Masked
Haliaeetus leucocephalus
Bald Eagle
PRJNA237821
N/A
Leptosomus discolor
Cuckoo-roller
PRJNA212897
Unmasked Masked
Manacus vitellinus
Golden-collared Manakin
PRJNA212872
Unmasked Masked
Meleagris gallopavo
Turkey
PRJNA42129
Unmasked Masked
Melopsittacus undulatus
Budgerigar
PRJEB1588
Unmasked Masked
Merops nubicus
Carmine Bee-eater
PRJNA212898
Unmasked Masked
Mesitornis unicolor
Brown Mesite
PRJNA212899
Unmasked Masked
Nestor notabilis
Kea
PRJNA212900
Unmasked Masked
Nipponia nippon
Crested ibis
PRJNA232572
Unmasked Masked
Ophisthocomus hoazin
Hoatzin
PRJNA212873
Unmasked Masked
Pelecanus crispus
Dalmatian Pelican
PRJNA212901
Unmasked Masked
Phaethon lepturus
White-tailed Tropicbird
PRJNA212902
Unmasked Masked
Phalacrocorax carbo
Great Cormorant
PRJNA212903
Unmasked Masked
Phoenicopterus ruber
Caribbean Flamingo
PRJNA212904
Unmasked Masked
Picoides pubescens
Downy Woodpecker
PRJNA212874
Unmasked Masked
Podiceps cristatus
Great Crested Grebe
PRJNA212905
Unmasked Masked
Pterocles gutturalis
Yellow-throated Sandgrouse
PRJNA212906
Unmasked Masked
Pygoscelis adeliae
Adelie Penguin
PRJNA235983
Unmasked Masked
Struthio camelus
Common Ostrich
PRJNA212875
Unmasked Masked
Taeniopygia guttata
Zebra Finch
PRJNA17289
Unmasked Masked
Tauraco erythrolophus
Red-crested Turaco
PRJNA212908
Unmasked Masked
Tinamus guttatus
White-throated Tinamou
PRJNA212876
Unmasked Masked
Tyto alba
Barn Owl
PRJNA212909
Unmasked Masked


Using the Resources on CoGe

The Comparative Genomics (CoGe) browser is designed to make it easy to find and compare genomic sequences, including multiple species and multiple versions of genomes. There is no single, linear workflow through the system. Instead, CoGe's tools allow you to access the system to find sequences of interest, and "hub" points to take you from one part of the system to another. This allows for ideas to be generated while working CoGe, and be able to quickly branch out to investigate any number of interesting phenomena you find.

The bird genomes are publicly available through CoGe, and are organized into notebooks.

CoGe's web-tools have several applications for initiating an analysis:

  • OrganismView: Search and get an overview of an organism and its genomic information
  • CoGeBlast: Blast against any number of organisms using CoGe's Blast interface (supports Blast, and BlastZ).
  • FeatView: Search for genomic features by name or description
  • SynMap: Generate syntenic dotplots of any two genomes
  • GEvo: Compare multiple genomic regions using a variety of sequence comparison algorithms for high-resolution analysis to quickly identify patterns of genome evolution

More information on getting started, including tutoials on how to use CoGe tools, is here: https://genomevolution.org/wiki/index.php/New_to_CoGe

Useful Links

  • Birdbase - A database of avian genes and genomes.
  • AgBase - A curated resource for functional analysis of agricultural plant and animal gene products, including Gene Ontology annotations.
  • Chicken Gene Nomenclature Consortium (CGNC) - Providing standardized gene nomenclature for chicken genes.
  • CoGe Bird Genomes Notebook - CoGe Notebook containing all masked and unmasked Croc genomes, for easy access to comparative genome analyses.

Related Resources

  • Croc CoGe - Crocodile genomes from the Croc Genome Project

References

[1] E. D. Jarvis, a. et, Whole genome analyses resolve the early branches in the tree of life of modern birds. Science in press, (2014).
[2] G. Zhang, e. al., Comparative genomics reveal insights into avian genome evolution and adaption. Science in press, (2014).