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Nectandra Cissiflora DNA Barcoding Publications How many Species are there on Earth? Sir Robert May Science 1988 Ernst Haeckel Described Species 1,562,000 spp. = 10,000 spp. Mammals 4,500 spp. = 10,000 spp. Birds 9,500 spp. = 10,000 spp. Reptiles 6,500 spp. = 10,000 spp. Amphibians 4,000 spp. = 10,000 spp. Fish 22,000 spp. = 10,000 spp. Echinoderms 6,000 spp. = 10,000 spp. Molluscs 70,000 spp. = 10,000 spp. Worms and kind 12,000 spp. = 10,000 spp. Insects 840,000 spp. = 10,000 spp. Arachnids 75,000 spp. = 10,000 spp. Crustaceans 30,000 spp. = 10,000 spp. Other Arthropods 10,000 spp. = 10,000 spp. Flatworms 15,000 spp. = 10,000 spp. Rotifers and Nematodes 15,000 spp. = 10,000 spp. Jellyfish and kind 9,500 spp. = 10,000 spp. Other Invertebrates 13,000 spp. = 10,000 spp. Sponges 9,000 spp. = 10,000 spp. Fungi 70,000 spp. = 10,000 spp. Flowering Plants 230,000 spp. = 10,000 spp. Other Plants 26,000 spp. = 10,000 spp. Algae and other Protists 80,000 spp. = 10,000 spp. Bacteria and Archaea 5,000 spp. = 10,000 spp. Ignorance Index Ignorance Index 90% 87% 93% 97% 99% 15% 65% 88% 80% 7% Species Accumulation Curves Bacteria The Tricorder DNA - “The Code of Life” Jansen & Hebert 14812–14817 PNAS October 12, 2004 vol. 101 no. 41 Publicidad CBoL http://www.barcoding.si.edu/ Philosophical Transactions: Biological Sciences Issue: Volume 360, Number 1462 / October 29, 2005 BOLs • BarcodeBlog http://phe.rockefeller.edu/barcode/blog • BOLI-Barcode of Life Initiative www.dnabarcodes.org • BOLInfoNET-Barcode of Life InfoNET www.bolinfonet.org • BOLNET-Canadian Barcode of Life Network www.bolnet.ca • CBOL-Consortium for the Barcode of Life www.barcoding.si.edu • CCDB-Canadian Centre for DNA Barcoding www.dnabarcoding.ca • ECBOL-European Consortium for the Barcode of Life www.ecbol.org • iBOL-International Barcode of Life www.ibolproject.org • NBOL-Barcode of Life NL www.dnabarcoding.nl Campaigns • ABBI www.barcodingbirds.org • AllLeps-Lepidoptera Barcode of Life www.lepbarcoding.org • Bee-BOL www.bee-bol.org • CMarZ-Census of Marine Zooplankton www.cmarz.org • FISH-BOL-Fish Barcode of Life www.fishbol.org • Barcoding Invasive and Pest Species barcoding.si.edu/INBIPS.htm • MarBOL-Marine Barcode of Life www.marinebarcoding.org • MBI-Mosquito Barcode Initiative • PolarBOL-Polar Barcode of Life www.polarbarcoding.org • QBOL-Quarantine Barcode of Life www.qbol.org • TBI-Tephritid Barcode Initiative Plants? Consortium for the Genetic Identification of Neotropical Plants Cassio van den Berg- Brasil Gerardo Salazar – México Santiago Madriñán – Colombia Consortium for the Genetic Identification of Neotropical Plants Cassio van den Berg- Brasil Gerardo Salazar – México Santiago Madriñán – Colombia http://ArBOL.uniandes.edu.co 4 No of species in CTFS plots 4 Indets 4 Overall Indets Sampling Priorities Use Availability timber Plots medicinal DNA Banks food Complex Taxonomy Unique Ecosystems Resources • Interested botanical community • Active molecular laboratories • Botanical Gardens • Well-established Forestry Networks w/ Permanent Plots Center for Tropical Forest Science (CTFS) 20 Forest Plots in 15 Countries More than 75 Partner Institutions Worldwide RainFor 59 Proof of Concept Papers Projects at the “Laboratorio de Botánica y Sistemática” • Sensitivity Tests – Families with complex taxonomy – Large genera – Recently evolved floras Lauraceae • Big family • Largely understudied • VERY difficult to id. • Economically important Species Complexes Phylogenetic Spread accD matK ndhJ rpoB rpoC1 Actinodaphne glabra K-8202 Actinodaphne pruinosa K-8203 Aiouea dubia AN-417 Beilschmiedia pendula BCI-065681 Beilschmiedia pendula BCI-170421 Beilschmiedia pendula BCI-257596 Beilschmiedia tawa K-5519 Caryodaphnopsis cogolloy JAUM-s.n. Cinnamomum camphora K-6469 Cinnamomum dictyoneuron K-8201 Lauraceae Cinnamomum obtusifolium K-8303 Cinnamomum triplinerve BCI-206711 Cinnamomum triplinerve BCI-240764 Cinnamomum triplinerve SM-Ama-005 Cinnamomum zeylanicum K-8306 Cryptocarya triplinervis K-5522 Dodecadenia grandiflora K-5520 Endlicheria sp. 1 SM-Ama-006 Endlicheria sp. 2 SM-Ama-003 Lauraceae sp. 1 A-1535 rpoC Lauraceae sp. 2 NN-BCI? accD matK ndhJ rpoB Laurus azorica K-21989 1 Laurus nobilis SM-s.n. Lindera benzoin K-16947 Litsea cubeba K-15475 Nectandra cissiflora BCI-216314 Genera 17 17 16 17 17 Nectandra cissiflora BCI-233922 Nectandra cissiflora BCI-244145 Nectandra cissiflora BCI-269005 Nectandra cuspidata FC-1579 Nectandra cuspidata Gamboa-s.n. Species 42 40 36 42 43 Nectandra 'fuzzy' BCI-036152 Nectandra 'fuzzy' BCI-105750 Nectandra lineata BCI-065446 Nectandra lineata BCI-220065 Specimens 47 58 42 48 49 Nectandra purpurea BCI-151022 Nectandra purpurea BCI-277412 Nectandra purpurea BCI-415163 Nectandra sp. 1 AN-410 Sp. w/ >1 Nectandra sp. 1 AN-411 5 11 6 6 6 Neolitsea aciculata K-17739 specimen Ocotea callophyla SM-s.n. Ocotea cernua BCI-206437 Ocotea cernua BCI-215988 Ocotea cernua BCI-412951 Ocotea floribunda HD-1166 Ocotea guianensis A-818 Ocotea oblonga BCI-309078 Ocotea oblonga BCI-403510 Ocotea puberula BCI-146684 Ocotea puberula BCI-272219 Ocotea puberula BCI-716317 Ocotea sp. 1 HD-1167 Ocotea whitei BCI-008086 Ocotea whitei BCI-306277 Persea americana SM-s.n. Persea caerulea Sánchez-4911 Persea rimosa K-8204 Rhodostemonodaphne frontinoensis Brant-1387 Rhodostemonodaphne kunthiana HD-1175 Rhodostemonodaphne kunthiana Madriñán-717 Rhodostemonodaphne penduliflora SM-s.n. Sassafras albidum K-16948 matK 974 bp 500 400 300 Frequency 200 100 matK 0 0.00 0.01 0.02 0.03 0.04 0.05 0.06 0.07 0.08 0.09 0.10 0.11 0.12 0.13 0.14 0.15 0.16 0.17 0.18 0.19 0.20 0.21 0.22 0.23 0.24 0.25 0.26 0.27 0.28 0.29 K2P Distance Inter Intra trnH-psbA 596 bp trnH-psbA GenBank (50) + Samles (43) 93 sequences rbcL GenBank Accessions trnH- accD matK ndhJ rpoB rpoC1 rbcL psbA All GenBank 1,509 19,354 305 7,144 1,445 36,228 904 Viridiplantae 838 19,299 278 590 904 29,627 903 Lauraceae 0 158 0 0 0 9 50 matK BLAST matches matK GenBank (134) + Samples (58) 192 sequences matK 3 GenBank (134) + Samples (58) 2 192 sequences 1 1 Dodecadenia? Cryptocarya triplinervis K-5522 Match Beilschmiedia pendula BCI-170421 Match Caryodaphnopsis cogolloi JAUM-s.n. Match Dodecadenia grandiflora K-5520 Oh Oh! 2 Persea caerulea Sánchez-4911 Match Persea americana SM-s.n. Match Neolitsea aciculata K-17739 Match 3 Laurus nobilis SM-s.n. Match Lindera benzoin K-16947 Nectandra cissiflora BCI-216314 Nectandra purpurea BCI-277412 Match? Ocotea callophyla SM-s.n. Sassafras albidum K-16948 Nectandra ''fuzzy'' BCI-105750 Match Nectandra ''fuzzy'' BCI-036152 trnH-psbA BLAST matches Beilschmiedia pendula BCI-257596 Match Caryodaphnopsis cogolloi JAUM-s.n. Match Persea americana SM-s.n. Match Laurus nobilis SM-s.n. Match Lindera benzoin K-16947 Match Cinnamomum triplinerve BCI-240764 Ocotea callophyla SM-s.n. Rhodostemonodaphne penduliflora Flora Ilustrada del Páramo de Chingaza chingaza.uniandes.edu.co Species Accumulation in Páramos # spp. Year ITS 1047 chars. 167 variable uninformative Hypericum in Páramos 204 informative Tree search aborted after 30000 trees 669 steps CI = 0.744 1989 2002 Obrigado! ArBOL.uniandes.edu.co.
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