Plant Genomics Data
Green Biome Institute
The GBI is striving to publish our draft genomic profiles in as transparent a manner as possible.
We will therefore compose a White Papers for every plant dataset created illustrating our data quality and the details of analysis methodology. These will be available shortly. If you have questions or inquiries, please contact Dr. Chris Baysdorfer.
The table below contains links to all available sequencing data we have assembled on endangered California plants to date.The first accession number link will take you to the bioproject page of Genbank and from there you can access raw datasets and other information. The second link under Calflora takes you to the appropriate CalFlora page for each plant type. The in-depth Calflora reviews of each of California's plants are a great resource for plant information. Lastly, several plants are listed as unavailable. Data for these plants exists and if you are interested in a not-yet-released plant, please reach out to our PIs in charge of the plant species. Dr. Ana Almeida is in charge of the Manzanita program. All other plants including; the Fritillaria, Scoliopus, and Prosartes programs are managed by Dr. Chris Baysdorfer. We hope you find the information useful and encourage you to reach out to us if you have any questions!
RARE PLANT GENOMIC DATA AND REPORTS
Name |
Common
|
CNPS
|
BioProject Accession Number(s) |
Calflora |
Data Released |
| Abronia alpina | Ramshaw meadows abronia | 1B.1 | PRJNA1085347 | link | Yes |
| Agrostis hooveri | Hoover's bent grass, Hoover's bentgrass | 1B.2 | PRJNA1083522 | link | Yes |
| Astragalus pycnostachyus var. lanosissimus | Marsh milk vetch, Marsh milkvetch |
1B.1 | PRJNA1082787 | link | Yes |
| Baccharis plummerae ssp. glabrata | San simeon baccharis | 1B.2 | PRJNA1083534 | link | Yes |
| Baccharis vanessae | Encinitas baccharis | 1B.1 | PRJNA1085363 | link | Yes |
| Balsamorhiza macrolepis (Big-scale balsamroot) |
Big scale balsam root, California balsamroot | 1B.2 | PRJNA1085374 | link | Yes |
| Bensoniella oregona | Bensoniella | 1B.1 | PRJNA1083610 | link | Yes |
| Berberis nevinii | Nevin's barberry | 1B.1 | PRJNA1082748 | link | Yes |
| Berberis pinnata ssp. insularis | Island barberry | 1B.2 | PRJNA1143663 | link | Yes |
| Brodiaea filifolia | Thread leaved brodiaea, Threadleaf brodiaea | 1B.1 | PRJNA1085364 | link | Yes |
| Brodiaea orcutti | Orcutt's brodiaea | 1B.1 | PRJNA1086974 | link | Yes |
| Brodiaea pallida | Chinese camp brodiaea | 1B.1 | PRJNA1197549 | link | Yes |
| Calystegia purpurata ssp. saxicola | Bodega morning glory, Pacific false bindweed | 1B.2 | PRJNA1083552 | link | Yes |
| Calystegia stebbinsii | Cutleaf morning glory, El dorado morningglory, Stebbins's morning glory |
1B.1 | PRJNA1082740 | link | Yes |
| Campanula californica | Swamp harebell | 1B.2 | PRJNA1083936 | link | Yes |
| Carex xerophila | chaparral sedge | 1B.2 | PRJNA1083609 | link | Yes |
| Castilleja ambigua var. humboldtiensis | Humboldt bay owl's-clover | 1B.2 | PRJNA1143650 | link | Yes |
| Castilleja hololeuca | Island white-felted paintbrush | 1B.2 | PRJNA1083550 | link | Yes |
| Castilleja mendocinensis | Mendocino coast paintbrush | 1B.2 | PRJNA1143909 | link | Yes |
| Ceanothus confusus | Rincon ridge ceanothus | 1B.1 | PRJNA1083538 | link | Yes |
| Ceanothus divergens | Calistoga ceanothus | 1B.2 | PRJNA1083547 | link | Yes |
| Ceanothus foliosus var. vineatus | Vine hill ceanothus | 1B.1 | PRJNA1082741 | link | Yes |
| Ceanothus hearstiorum | Hearst ranch buckbrush, Hearst's ceanothus | 1B.2 | PRJNA1083549 | link | Yes |
| Ceanothus maritimus | Maritime ceanothus, San luis obispo ceanothus |
1B.2 | PRJNA1083551 | link | Yes |
| Ceanothus roderickii | Pine hill buckbrush, Pine hill ceanothus |
1B.1 | PRJNA1082705 | link | Yes |
| Centromadia parryi ssp. parryi | Pappose tarplant | 1B.2 | PRJNA1143918 | link | Yes |
| Centromadia pungens ssp. laevis | Smooth tarplant | 1B.1 | PRJNA1143651 | link | Yes |
| Chlorogalum grandiflorum | Red hills soap plant, Red hills soaproot | 1B.2 | PRJNA1083548 | link | Yes |
| Chlorogalum purpureum var. purpureum | Purple amole | 1B.1 | PRJNA1086981 | link | Yes |
| Chloropyron palmatum | Palmate-bracted bird's-beak | 1B.1 | PRJNA1143916 | link | Yes |
| Chorizanthe robusta var. hartwegii | Robust spineflower, Scott's valley spineflower | 1B.1 | PRJNA1143680 | link | Yes |
| Clarkia franciscana | Presidio clarkia | 1B.1 | PRJNA1143544 | link | Yes |
| Clarkia imbricata | Vine hill clarkia | 1B.1 | PRJNA1082710 | link | Yes |
| Clarkia jolonensis | Jolon clarkia | 1B.2 | PRJNA1082710 | link | Yes |
| Clarkia mildrediae ssp. mildrediae | Mildred's clarkia | 1B.3 | PRJNA1143681 | link | Yes |
| Crocanthemum greenei | Island rush-rose | 1B.2 | PRJNA1082739 | link | Yes |
| Deinandra bacigalupii | Livermore moonshine, Livermore tarplant | 1B.1 | PRJNA1143917 | link | Yes |
| Delphinium bakeri | Baker's delphinium, Baker's larkspur | 1B.1 | PRJNA1082753 | link | Yes |
| Delphinium luteum (Golden larkspur) | Golden larkspur, Yellow larkspur |
1B.1 | PRJNA1085366 | link | Yes |
| Dirca occidentalis | Western leatherwood | 1B.2 | PRJNA1083554 | link | Yes |
| Dudleya densiflora | San gabriel mountains liveforever, San gabriel mtns. dudleya | 1B.1 | PRJNA1082320 | link | Yes |
| Dudleya gnoma | Munchkin liveforever | 1B.1 | PRJNA1083519 | link | Yes |
| dudleya setchellii | Santa clara valley dudleya | 1B.1 | PRJNA1143919 | link | Yes |
| Erigeron maniopotamicus | Mad river fleabane daisy | 1B.2 | PRJNA1143676 | link | Yes |
| Eriodictyon altissimum | Indian knob mountainbalm | 1B.1 | PRJNA1082750 | link | Yes |
| Eriogonum crocatum | Conejo buckwheat | 1B.2 | PRJNA1083555 | link | Yes |
| Eriogonum giganteum var. compactum | Santa barbara island buckwheat | 1B.3 | PRJNA1143668 | link | Yes |
| Eriogonum grande var. rubescens | Red flowered buckwheat, Redflower buckwheat | 1B.2 | PRJNA1085359 | link | Yes |
| Eriogonum grande var. timorum (San Nicolas Island buckwheat) | San nicolas island buckwheat | 1B.1 | PRJNA1085367 | link | Yes |
| Eriogonum luteolum var. saltuarium | Goldencarpet buckwheat | 1B.2 | PRJNA1143677 | link | Yes |
| Eriogonum ovalifolium var. vineum | Cushenbury buckwheat | 1B.1 | PRJNA1083611 | link | Yes |
| Eriogonum truncatum | Mt. Diablo buckwheat | 1B.1 | PRJNA1080902 | link | Yes |
| Eriogonum umbellatum var. lautum | Scott valley buckwheat | 1B.1 | PRJNA1143906 | link | Yes |
| Eryngium jepsonii | Jepson's eryngo | 1B.2 | PRJNA1131483 | link | Yes |
| Eryngium pinnatisectum | Tuolumne button celery, Tuolumne eryngo | 1B.2 | PRJNA1143678 | link | Yes |
| Erysimum concinnum (Bluff wallflower) | Bluff wallflower, Headland wallflower |
1B.2 | PRJNA1085371 | link | Yes |
| Frangula purshiana ssp. ultramafica | Caribou coffeeberry | 1B.2 | PRJNA1082711 | link | Yes |
| Fremontodendron decumbens | Pine hill flannelbush | 1B.2 | PRJNA1083556 | link | Yes |
| Fremontodendron mexicanum | Mexican flannelbush | 1B.1 | PRJNA1143911 | link | Yes |
| Fritillaria affinis var. tristulis | Coast checker lily, Mission bells | 1B.1 | PRJNA1085351 | link | Yes |
| Fritillaria agrestis | Stinkbells | 4.2 | PRJNA1086975 | link | Yes |
| Fritillaria agrestis | Stinkbells | 4.2 | PRJNA1086976 | link | Yes |
| Fritillaria biflora | Chocolate lily | 1B.1 | PRJNA1085352 | link | Yes |
| Fritillaria biflora var. ineziana | Hillsborough chocolate lily |
1B.1 | PRJNA1086977 | link | Yes |
| Fritillaria falcata | Talus fritillary | 1B.2 | PRJNA1085353 | link | Yes |
| Fritillaria liliacea | Fragrant fritillary | 1B.2 | PRJNA1086978 | link | Yes |
| Fritillaria liliacea | Fragrant fritillary | 1B.2 | PRJNA1086979 | link | Yes |
| Fritillaria liliacea | Fragrant fritillary | 1B.2 | PRJNA1086980 | link | Yes |
| Fritillaria pluriflora | Adobe lily | 1B.2 | PRJNA1085354 | link | Yes |
| Fritillaria roderickii | Roderick's fritillary | 1B.1 | PRJNA1085355 | link | Yes |
| Fritillaria striata | Striped adobe lily | 1B.1 | PRJNA1085361 | link | Yes |
| Galium buxifolium | Box bedstraw | 1B.2 | PRJNA1083608 | link | Yes |
| Galium californicum ssp. luciense | Cone Peak bedstraw | 1B.3 | PRJNA1082752 | link | Yes |
| Galium californicum ssp. sierrae | El dorado bedstraw | 1B.2 | PRJNA1083562 | link | Yes |
| Gambelia speciosa | Showy island snapdragon | 1B.2 | PRJNA1083558 | link | Yes |
| Gambelia speciosa | Showy island snapdragon | 1B.2 | PRJNA1143653 | link | Yes |
| Helianthella castanea | Mt. diablo helianthella | 1B.2 | PRJNA1083563 | link | Yes |
| Heuchera brevistaminea | Laguna mountain alumroot, Mt. laguna alumroot | 1B.3 | PRJNA1082749 | link | Yes |
| Heuchera maxima | Island alum root, Island alumroot, Jill of the rocks |
1B.2 | PRJNA1143661 | link | Yes |
| Hoita strobilina | Loma Prieta hoita, Loma prieta psoralea |
1B.1 | PRJNA1082347 | link | Yes |
| Horkelia marinensis | Point reyes horkelia | 1B.2 | PRJNA1085375 | link | Yes |
| Horkelia parryi | Parry horkelia, Parry's horkelia | 1B.2 | PRJNA1083564 | link | Yes |
| Lasthenia conjugens | Contra costa goldfields | 1B.1 | PRJNA1083938 | link | Yes |
| Lavatera assurgentiflora ssp. glabra | Southern island mallow | 1B.1 | PRJNA1082754 | link | Yes |
| Lilium maritimum | Coast lily | 1B.1 | PRJNA1086982 | link | Yes |
| Lilium occidentale | Western lily | 1B.1 | PRJNA1143667 | link | Yes |
| Lilium pardalinum ssp. pitkinense (Pitkin Marsh lily) | Pitkin marsh lily | 1B.1 | PRJNA1086983 | link | Yes |
| Limnanthes douglasii ssp. sulphurea | Douglas' meadowfoam, Meadow foam, Point Reyes meadowfoam |
1B.2 | PRJNA1143915 | link | Yes |
| Lonicera subspicata var. subspicata | Santa Barbara honeysuckle, Southern honeysuckle | 1B.2 | PRJNA1083565 | link | Yes |
| Lyonothamnus floribundus ssp. aspleniifolius | Santa cruz island ironwood | 1B.2 | PRJNA1143655 | link | Yes |
| Malacothamnus abbottii | Abbott's bushmallow | 1B.1 | PRJNA1085362 | link | Yes |
| Malacothamnus fasciculatus var. nesioticus (Santa Cruz Island bush-mallow) | Santa Cruz Island bushmallow | 1B.1 | PRJNA1085368 | link | Yes |
| Malacothrix indecora | Santa cruz island cliff aster, Santa cruz island desertdandelion, Santa cruz island malacothrix |
1B.1 | PRJNA1085365 | link | Yes |
| Monardella australis ssp. jokerstii | Jokerst's monardella | 1B.1 | PRJNA1143652 | link | Yes |
| Monardella palmeri | Palmer's monardella | 1B.2 | PRJNA1143912 | link | Yes |
| Munzothamnus blairii | Blair's wirelettuce | 1B.2 | PRJNA1083566 | link | Yes |
| Neviusia cliftonii | Shasta snow wreath | 1B.2 | PRJNA1143657 | link | Yes |
| Noccaea fendleri ssp. californica | Kneeland prairie pennycress | 1B.1 | PRJNA1143682 | link | Yes |
| Nolina interrata (Dehesa nolina) | Dehesa beargrass, Dehesa nolina | 1B.1 | PRJNA1085369 | link | Yes |
| Oenothera wolfii | Wolf's evening primrose | 1B.1 | PRJNA1083941 | link | Yes |
| Packera layneae (Layne's ragwort) | Layne's ragwort | 1B.2 | PRJNA1085373 | link | Yes |
| Panicum acuminatum var. thermale | Geysers panicum | 1B.2 | PRJNA1083567 | link | Yes |
| Penstemon newberryi var. sonomensis | Sonoma beardtongue | 1B.3 | PRJNA1143914 | link | Yes |
| Pinus contorta ssp. bolanderi | Bolander pine, Bolander's beach pine | 1B.2 | PRJNA1083568 | link | Yes |
| Plagiobothrys chorisianus var. chorisianus | Artist's popcornflower, Choris's popcorn flower | 1B.2 | PRJNA1143910 | link | Yes |
| Polygonum hickmanii (Scotts Valley polygonum) | Hickman's knotweed, Scotts Valley polygonum | 1B.1 | PRJNA1085370 | link | Yes |
| Prosartes parvifolia | Siskiyou bells | 1B.2 | PRJNA1085357 | link | Yes |
| Quercus dumosa | Coastal sage scrub oak, Nuttall's scrub oak | 1B.1 | PRJNA1082751 | link | Yes |
| Ribes viburnifolium | Catalina currant, Island gooseberry, Santa catalina island currant |
1B.2 | PRJNA1143662 | link | Yes |
| Rosa woodsii var. glabrata | Woods' rose | 1B.1 | PRJNA1082345 | link | Yes |
| Salvia brandegeei | Brandegee's sage, Santa rosa island sage | 1B.2 | PRJNA1143658 | link | Yes |
| Sidalcea calycosa ssp. rhizomata | Point reyes checkerbloom, Pt. reyes checkerbloom, Pt. reyes sidalcea | 1B.2 | PRJNA1085345 | link | Yes |
| Sidalcea oregana ssp. valida | Kenwood marsh checkerbloom | 1B.1 | PRJNA1085360 | link | Yes |
| Silene verecunda ssp. verecunda | Dolores campion, San francisco campion |
1B.2 | PRJNA1144405 | link | Yes |
| Streptanthus albidus ssp. albidus | Metcalf canyon jewel flower, Metcalf canyon jewelflower | 1B.1 | PRJNA1143920 | link | Yes |
| Streptanthus albidus ssp. peramoenus | Most beautiful jewel flower, Most beautiful jewelflower | 1B.2 | PRJNA1143921 | link | Yes |
| Streptanthus hispidus | Mt. diablo jewel flower, Mt. diablo jewelflower | 1B.3 | PRJNA1143913 | link | Yes |
| Streptanthus tortuosus ssp. truei | True's mountain jewelflower | 1B.1 | PRJNA1143679 | link | Yes |
| Suaeda esteroa | Estuary seablite | 1B.2 | PRJNA1082712 | link | Yes |
| Tracyina rostrata | Beaked tracyina, Indian headdress |
1B.2 | PRJNA1143907 | link | Yes |
| Wyethia reticulata | El dorado county mule ears, El dorado mule ears, Eldorado wyethia |
1B.2 | PRJNA1085356 | link | Yes |
| Yes | |||||
| Arctostaphylos andersonii | Heartleaf manzanita, Santa cruz manzanita | 1B.2 | PRJNA1143673 | link | No |
| Arctostaphylos auriculata | Mount Diablo manzanita | 1B.3 | PRJNA1084032 | link | No |
| Arctostaphylos bakeri ssp. bakeri (Baker's manzanita) | Baker's manzanita | 1B.1 | PRJNA1082755 | link | No |
| Arctostaphylos bakeri ssp. sublaevis | The cedars manzanita | 1B.2 | PRJNA1143660 | link | No |
| Arctostaphylos confertiflora | Santa rosa island manzanita | 1B.2 | PRJNA1082789 | link | No |
| Arctostaphylos cruzensis | Arroyo de la cruz manzanita, La cruz manzanita | 1B.2 | PRJNA1143671 | link | No |
| Arctostaphylos densiflora | Vine hill manzanita | 1B.1 | PRJNA1083942 | link | No |
| Arctostaphylos edmundsii | Little sur manzanita | 1B.2 | PRJNA1082790 | link | No |
| Arctostaphylos franciscana | Franciscan manzanita | 1B.1 | PRJNA1082758 | link | No |
| Arctostaphylos gabilanensis | Gabilan mountains manzanita | 1B.2 | PRJNA1082759 | link | No |
| Arctostaphylos glandulosa ssp. crassifolia | Costa baja manzanita, Del mar manzanita | 1B.1 | PRJNA1082760 | link | No |
| Arctostaphylos hookeri ssp. hearstiorum | Hearst's manzanita | 1B.2 | PRJNA1082791 | link | No |
| Arctostaphylos hookeri ssp. hookeri | Hooker's manzanita, Monterey manzanita | 1B.2 | PRJNA1082792 | link | No |
| Arctostaphylos imbricata | San bruno mountain manzanita, San bruno mtn. manzanita | 1B.1 | PRJNA1082761 | link | No |
| Arctostaphylos manzanita ssp. laevigata | Contra costa manzanita | 1B.2 | PRJNA1082762 | link | No |
| Arctostaphylos montana ssp. ravenii | Presidio manzanita | 1B.1 | PRJNA1082766 | link | No |
| Arctostaphylos montereyensis | Monterey manzanita, Toro manzanita | 1B.2 | PRJNA1143672 | link | No |
| Arctostaphylos morroensis | Morro manzanita | 1B.1 | PRJNA1083943 | link | No |
| Arctostaphylos nummularia ssp. mendocinoensis | Pygmy manzanita | 1B.2 | PRJNA1082779 | link | No |
| Arctostaphylos ohloneana | Ohlone manzanita | 1B.1 | PRJNA1143659 | link | No |
| Arctostaphylos osoensis | Oso manzanita | 1B.2 | PRJNA1083523 | link | No |
| Arctostaphylos Otayensis | Otay manzanita | 1B.2 | PRJNA1143675 | link | No |
| Arctostaphylos pacifica | Pacific manzanita | 1B.1 | PRJNA1082781 | link | No |
| Arctostaphylos pajaroensis | Pajaro manzanita | 1B.1 | PRJNA1082782 | link | No |
| Arctostaphylos pallida | Alameda manzanita, Oakland hills manzanita, Pallid manzanita | 1B.1 | PRJNA1082783 | link | No |
| Arctostaphylos pechoensis | Pecho manzanita | 1B.2 | PRJNA1143665 | link | No |
| Arctostaphylos pumila | Dune manzanita, Sandmat manzanita | 1B.2 | PRJNA1083525 | link | No |
| Arctostaphylos purissima | La purisima manzanita, La purissima manzanita | 1B.1 | PRJNA1083944 | link | No |
| Arctostaphylos rainbowensis | Rainbow manzanita | 1B.1 | PRJNA1083945 | link | No |
| Arctostaphylos refugioensis | Refugio manzanita | 1B.2 | PRJNA1143674 | link | No |
| Arctostaphylos regismontana | Kings mountain manzanita, Kings mtn. manzanita |
1B.2 | PRJNA1083946 | link | No |
| Arctostaphylos rudis | Sand mesa manzanita, Shagbark manzanita | 1B.2 | PRJNA1143664 | link | No |
| Arctostaphylos silvicola | Bonny doon manzanita, Silverleaf manzanita | 1B.2 | PRJNA1083526 | link | No |
| Arctostaphylos stanfordiana ssp. decumbens | Rincon manzanita | 1B.1 | PRJNA1082785 | link | No |
| Arctostaphylos stanfordiana ssp. raichei | Rincon manzanita | 1B.1 | PRJNA1083947 | link | No |
| Arctostaphylos tomentosa ssp. daciticola (Dacite manzanita) | Dacite manzanita | 1B.1 | PRJNA1082786 | link | No |
| Arctostaphylos virgata | Bolinas manzanita, Marin manzanita |
1B.2 | PRJNA1083533 | link | No |
| Carex klamathensis | 1B.2 | PRJNA1143908 | link | No | |
| Castilleja mollis | Soft leaved indian paintbrush | 1B.1 | PRJNA839797 | link | No |
| Cercocarpus traskiae | Catalina Island Mountain Mahogany | 1B.1 | PRJNA1082338 | link | No |
| Fritillaria affinis | Checker lily, Mission bells | N/A | PRJNA1199496 | link | No |
| Fritillaria agrestis | Stinkbells | 4.2 | PRJNA1199494 | link | No |
| Fritillaria biflora | Chocolate lily | 1B.1 | PRJNA1199497 | link | No |
| Fritillaria biflora | Chocolate lily | 1B.1 | PRJNA1199498 | link | No |
| Fritillaria biflora | Chocolate lily | 1B.1 | PRJNA1199499 | link | No |
| Fritillaria liliacea | Fragrant fritillary | 1B.2 | PRJNA1199493 | link | No |
| Fritillaria liliacea | Fragrant fritillary | 1B.2 | PRJNA1199492 | link | No |
| Fritillaria purdyi | Purdy's fritillary | 4.3 | PRJNA1199501 | link | No |
| Scoliopus bigelovii | California fetid adderstongue, Fetid adder's tongue, Slink pod | N/A | PRJNA1085358 | link | No |
| Scoliopus hallii | Oregon fetid adderstongue | N/A | PRJNA1085346 | N/A | No |
Coming soon.
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