From 757ccdd47684d92ee41d1fb2799bbb84d85b0e7d Mon Sep 17 00:00:00 2001
From: Charles Plessy <charles.plessy@oist.jp>
Date: Thu, 21 Jul 2022 12:05:35 +0900
Subject: [PATCH] =?utf8?q?=C3=80=20la=20maison?=
MIME-Version: 1.0
Content-Type: text/plain; charset=utf8
Content-Transfer-Encoding: 8bit

---
 biblio/10.1111_2041-210X.12073.mdwn | 10 ++++++++++
 1 file changed, 10 insertions(+)
 create mode 100644 biblio/10.1111_2041-210X.12073.mdwn

diff --git a/biblio/10.1111_2041-210X.12073.mdwn b/biblio/10.1111_2041-210X.12073.mdwn
new file mode 100644
index 00000000..9edb8cd1
--- /dev/null
+++ b/biblio/10.1111_2041-210X.12073.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data."]]
+[[!tag ribosome]]
+
+Bengtsson-Palme, J., Ryberg, M., Hartmann, M., Branco, S., Wang, Z., Godhe, A., De Wit, P., Sánchez-García, M., Ebersberger, I., de Sousa, F., Amend, A., Jumpponen, A., Unterseher, M., Kristiansson, E., Abarenkov, K., Bertrand, Y.J.K., Sanli, K., Eriksson, K.M., Vik, U., Veldre, V. and Nilsson, R.H.
+
+Methods Ecol Evol, 4: 914-919. 2013
+
+Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data. 
+
+[[!doi 10.1111/2041-210X.12073 desc="Fungal HMMs were computed for a 45-base-pair region of the immediate 3′ end of SSU, the 5′ and 3′ ends of 5.8S, and the 5′ end of LSU [...] The SSU is extracted as everything from the 5′ end of the query sequence to the 3′ end of SSU as indicated by the HMM match; the ITS1 is extracted 1 bp downstream from the end of SSU and 1 bp upstream of the start of 5.8S; and so on. [...] we evaluated the proportion of false positives by generating one million random sequences of 550 bp [...] Zero false-positive ‘ITS’ sequences were detected among the random sequences [...] The extractor cannot identify sequences of SSU, 5.8S or LSU shorter than c. 20 bp (25 bp for consistent performance)"]]
-- 
2.47.3