@article{fdi:010092766,
  title = {{U}ltra pure high molecular weight {DNA} from soil for {N}anopore shotgun metagenomics and metabarcoding sequencing},
  author = {{C}ousson, {A}. and {P}ablo, {A}nne-{L}aure and {C}ournac, {L}aurent and {P}iton, {G}. and {D}ezette, {D}. and {R}obin, {A}. and {T}aschen, {E}. and {B}ernard, {L}aetitia},
  editor = {},
  language = {{ENG}},
  abstract = {{S}oil microbes are among the most abundant and diverse organisms on {E}arth but remain poorly characterized. {N}ew technologies have made possible to sequence the {DNA} of uncultivated microorganisms in soil and other complex ecosystems. {G}enome assembly is crucial for understanding their functional potential. {N}anopore sequencing technologies allow to sequence long {DNA} fragments, optimizing production of metagenome-assembled genomes compared to short-read technology. {E}xtracting {DNA} with a very high purity and high molecular weight is key to get the most out of this long read technologies. {H}ere we present two extraction protocols to get {DNA} with high purity. {F}irst protocol is optimized to reach {DNA} quality suiting {N}anopore shotgun metagenomics. {I}t uses a non-toxic centrifugation gradient to separate bacterial cells from soil to extract {DNA} directly on cells. {T}he median length of the acquired {DNA} sequences ({N}50) was 3 to 7 times greater than previously published in the literature, achieving an {N}50 of similar to 14 kb. {T}he other, a modification of a commercially available {MP} {B}iomedical {DNA} extraction kit, yielded high-purity {DNA} for full-length 16{S} {O}xford {N}anopore metabarcoding, with an {N}50 of similar to 8 kb. {T}he {MP}-based protocol achieves higher yields of ultra-pure {DNA} compared to the {N}ycodenz protocol, at the expense of shorter fragment lengths.},
  keywords = {{S}olvent free ; {B}acterial cells ; {L}ong fragments ; {C}ommunity {DNA} ; {N}ycodenz ; {MP} kit ; {M}etabarcoding ; {M}etagenomics-{O}xford nanopore nanopore sequencing},
  booktitle = {},
  journal = {{M}ethodsx},
  volume = {14},
  numero = {},
  pages = {103134 [9 p.]},
  year = {2025},
  DOI = {10.1016/j.mex.2024.103134},
  URL = {https://www.documentation.ird.fr/hor/fdi:010092766},
}