@article{fdi:010085864,
  title = {{E}stimating the extended and hidden species diversity from environmental {DNA} in hyper-diverse regions},
  author = {{J}uhel, {J}. {B}. and {M}arques, {V}. and {U}tama, {R}. {S}. and {V}imono, {I}. {B}. and {S}ugeha, {H}. {Y}. and {K}adarusman, {K}. and {C}ochet, {C}hristophe and {D}ejean, {T}. and {H}oey, {A}. and {M}ouillot, {D}. and {H}ocd{\'e}, {R}{\'e}gis and {P}ouyaud, {L}aurent},
  editor = {},
  language = {{ENG}},
  abstract = {{S}pecies inventories are the building blocks of our assessment of biodiversity patterns and human impact. {Y}et, historical inventories based on visual observations are often incomplete, impairing subsequent analyses of ecological mechanisms, extinction risk and management success. {E}nvironmental {DNA} (e{DNA}) metabarcoding is an emerging tool that can provide wider biodiversity assessments than classical visual-based surveys. {H}owever, e{DNA}-based inventories remain limited by sampling effort and reference database incompleteness. {I}n this study, we propose a new framework coupling e{DNA} surveys and sampling-theory methods to estimate species richness in under-sampled and hyper-diverse regions where some species remain absent from the checklist or undetected by visual surveys. {W}e applied this framework to the coastal fish diversity in the heart of the coral triangle, the richest marine biodiversity hotspot worldwide. {C}ombining data from 279 underwater visual censuses, 92 e{DNA} samples and an extensive custom genetic reference database, we show that e{DNA} metabarcoding recorded 196 putative species not detected by underwater visual census including 37 species absent from the regional checklist. {W}e provide an updated checklist of marine fishes in the '{R}aja {A}mpat {B}ird's {H}ead {P}eninsula' ecoregion with 2534 species including 1761 confirmed and 773 highly probable presences. {T}he {C}hao lower-bound diversity estimator, based on the incidence of rare species, shows that the region potentially hosts an additional 123 fish species, including pelagic, cryptobenthic and vulnerable species. {T}he extended and hidden biodiversity along with their asymptotic estimates highlight the ability of e{DNA} to expand regional inventories and species distributions to better guide conservation strategies.},
  keywords = {chao estimator ; checklist ; coral triangle ; dark diversity ; e{DNA} ; metabarcoding ; {PAPOUASIE} {NOUVELLE} {GUINEE} ; {INDONESIE} ; {PAPOUASIE} {OCCIDENTALE} ; {RAJA} {AMPAT} ; {DOBERAI} {PENINSULE} ; {CENDERAWASIH} {GOLFE} ; {MOLUQUES} ; {BANDA} {MER} ; {TRITON} {BAY} ; {LENGGURU}},
  booktitle = {},
  journal = {{E}cography},
  volume = {[{E}arly access]},
  numero = {},
  pages = {e06299 [11 ]},
  ISSN = {0906-7590},
  year = {2022},
  DOI = {10.1111/ecog.06299},
  URL = {https://www.documentation.ird.fr/hor/fdi:010085864},
}