text
large_string | label
int32 |
|---|---|
following information was supplied regarding the deposition of DNA sequences:
The 16s RNA sequences of compost for Agaricus bisporus production are available at
GenBank: PRJNA664798.
BioSample: SAMN16233641, SAMN16233642, SAMN16233643, SAMN16233644,
SAMN16233645, SAM
| 1 |
3
Ophiotaenia sanbernardinensis
Helicops leopardinus
*MHNG-PLAT-18251
AJ388637
Zehnder et al. 1999
5.0
Ophiotaenia saphena
Lithobates pipiens
*MHNG-PLAT-32851
KP729402
This paper
8.3-8.7
Pangasiocestus romani (T)
Pangasius larnaudii
*MHNG-PLAT-75449
KP729397
This
| 1 |
paper; http://www.pdb.org
PDB: 5NNC
Crystal structure of BRD4/BD1 with
an H3 (K9ac/pS10/K14ac) peptide
This paper; http://www.pdb.org
PDB: 5NND
Crystal structure of BRD4/BD1 with
a TOP2A (K1201ac/K1204ac) peptide
This paper; http://www.pdb.org
PDB: 5NNE
Crys
| 1 |
c
3.5
Kapsulotaenia sp. 4
Varanus varius
*MHNG-PLAT-32838
AJ583454
de Chambrier et al. 2004c
6.5
Macrobothriotaenia ficta (T)
Xenopeltis unicolor
*MHNG-PLAT-75454
KC786020
Scholz et al. 2013
4.1
Manaosia bracodemoca (T)
Sorubim lima
*MHNG-PLAT-34186
KP729414
This
| 1 |
enome sequence
from YG 130.6
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168329
Publicly available at
NCBI GenBank
(accession no:
KT168329)
Heintzman PD,
Shapiro B
2017
Mitochondrial genome sequence
from YG 417.13
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168330
Publ
| 1 |
al author and source are
credited.
Data Availability Statement: All Nrf2 sequence files
are available from the GeneBank database
(accession number(s) KT345715, KT345716,
KT345717, KT345718, KT345719, KT345720,
KT345721, KT345722, KT345723, KT345724,
KT345725). Da
| 1 |
o
R
Q
E
D
No
ESEV
EPI_ISL_332396_A/chicken/Jiangsu/3/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332399_A/duck/Jiangsu/1/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_293289_A/Duck/Jiangsu/12/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_293290_A/Du
| 1 |
alyzed data is available in the supplemental materials for this
manuscript. RNA sequencing data is available through the Gene Expression
Omnibus (GEO, GSE128766), and DNA sequencing data is available through
the European Genome-Phenome Archive (EGA, EGAD00001004885).
Au
| 1 |
VAILABILITY
The assembly and annotation, as well as the raw reads, are available via BioProject
PRJNA700828. The assembled genomes accession number is GCA_024582855.4. The
new PacBio and Illumina raw reads can be found under the accession numbers
SRX23571306 and
| 1 |
D
No
ESEV
EPI_ISL_293286_A/Chicken/Jiangsu/103/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_291131_A/Chicken/Jiangsu/1/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332358_A/chicken/Jiangsu/1/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332395_A/ch
| 1 |
r-2014
JMi-231/CS1nor
CS1/no
KU363066
JMi-231/CS1de194
CS1/194 aa
KU363067
JMi-231/CS1de214
CS1/214 aa
KU363068
JMi-235
Third outbreak
Ho
Miyazaki
Jun-14
JMi-235/CS1nor
CS1/no
KU363069
JMi-235/CS1de201
CS1/201 aa
KU363070
JMi-235/CS1de203
CS1/203 aa
KU363071
JMi-
| 1 |
et al. 1999
19.4
Proteocephalus percae
Perca fluviatilis
*MHNG-PLAT-36744
AJ388594
Zehnder et al. 1999
13.8
Proteocephalus perplexus
Amia calva
*MHNG-PLAT-35366
FM956089
de Chambrier et al. 2009a
12.0
Proteocephalus pinguis
Esox lucius
*IPCAS C-679
KP729395
This
| 1 |
sembled transcript data used in this manuscript
have been submitted to European Nucleotide Archive at EMBL database with
Accession Number: PRJEB25632. New Illumina data in this manuscript have
been submitted to SRA database with Accession Number: PRJNA265584.
Con
| 1 |
mple, and the DDBJ read archive accession numbers for
the genome data are PRJDB8242, SAMD00169834, and DRA008324
respectively. The genome assembly has the accession numbers:
BJKT01000001BJKT01000065. The RNAseq data has accession numbers:
DRA008173, DRA006301, and
| 1 |
clare that they have no competing interests.
Availability of data and materials
All PacBio FL, non-FL, and assembled transcript data used in this manuscript
have been submitted to European Nucleotide Archive at EMBL database with
Accession Number: PRJEB25632. New
| 1 |
is paper; http://www.pdb.org
PDB: 6G0O
Crystal structure of BRD4/BD1 with
an E2F1 (K117ac/K120ac) peptide
This paper; http://www.pdb.org
PDB: 6G0P
Crystal structure of BRD4/BD1 with
a GATA1 (K312ac/K315ac) peptide
This paper; http://www.pdb.org
PDB: 6G0Q
Crys
| 1 |
the original author and source are
credited.
Data Availability Statement: All Nrf2 sequence files
are available from the GeneBank database
(accession number(s) KT345715, KT345716,
KT345717, KT345718, KT345719, KT345720,
KT345721, KT345722, KT345723, KT345724,
KT3
| 1 |
E
D
No
ESEV
EPI_ISL_291131_A/Chicken/Jiangsu/1/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332358_A/chicken/Jiangsu/1/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332395_A/chicken/Jiangsu/2/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332396_A/ch
| 1 |
of data and in writing the manuscript.
Availability of data and materials
All raw sequence data generated in this study is deposited in the NCBI
Sequence Read Archive (https://submit.ncbi.nlm.nih.gov/subs/sra/) under the
accession number SRR8906254-SRR8906256. Add
| 1 |
4
JMi-124/CS1nor
CS1/no
KU363059
JMi-124/CS1de194
CS1/194 aa
KU363060
JMi-124/CS1de201
CS1/201 aa
KU363061
JMi-124/CS1de202
CS1/202 aa
KU363062
JKa-230
Primary outbreak
Kac1
Kagoshima
Jul-14
JKa-230/CS1nor
CS1/no
KU363063
JKa-230/CS1de194
CS1/194 aa
KU363064
JKa-
| 1 |
w
England Biolabs (NEB), USA) with overnight incubation
at 56 C with proteinase K. The quality of the extraction
was verified by a PCR amplification of the host COI
gene (Table S6). A total of 20 sequences were deposited
in the GenBank Data Library: MN923050-MN92
| 1 |
n
of data and final manuscript.
Availability of data and materials
Data generated are available in GenBank: BioProject PRJNA593570;
BioSample SAMN13481355 for Wolbachia endosymbiont strain of Atemnus
sp. Specimen K5 (genome: WQMQ00000000); BioSample SAMN14519337 for
| 1 |
No
R
Q
E
D
No
ESEV
EPI_ISL_293289_A/Duck/Jiangsu/12/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_293290_A/Duck/Jiangsu/13/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_293291_A/Duck/Jiangsu/16/2018(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_332401_A/du
| 1 |
sala University SciLifeLab SFO funds.
Availability of data and materials
The single-amplified genome sequence dataset generated during the current
study is available in the EMBL-EBI European Nucleotide Archive repository,
under the primary accession PRJEB21451. The
| 1 |
111/1365-2745.13449.
DATA AVAILABILITY STATEMENT
Data available from the Dryad Digital Repository https://doi.
org/10.5061/dryad.r7sqv9s8n (in t Zandt et al., 2020). Raw root se-
quence reads are available via the NCBI SRA repository, BioProject
ID PRJNA627488: htt
| 1 |
lity
All normalized NGS data were deposited in GEO (URL:
https://www.ncbi.nlm.nih.gov/geo)
under
the
super
series accession GSE110720. Coding exome RNA-Seq
data is deposited under accession GSE110716, Poly-A
RNA-Seq data is deposited under accession GSE110717,
RRB
| 1 |
2source data 1, and the Rscript used
for morphometric analysis is in the DRYAD database (Heintzman et al., 2017). MtDNA genome
sequences have been deposited in Genbank under accessions KT168317-KT168336, MF134655-
MF134663, and an updated version of JX312727. All
| 1 |
g371/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445090
2019 April 26
A/shorebird/Liaoning/dandong386/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445091
2019 April 26
A/shorebird/Liaoning/dandong603/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445092
2019
| 1 |
3
JMi-292/CS1nor
CS1/no
KU363091
JMi-292/CS1de197
CS1/197 aa
KU363092
JMi-292/CS1de203
CS1/203 aa
KU363093
JMi-292/CS1de204
CS1/204 aa
KU363094
JKa-292/CS1de212
CS1/212 aa
KU363095
JKa-295
Primary outbreak
Kap5
Kagoshima
Jan-14
JMi-295/CS1nor
CS1/no
KU363096
JKa-
| 1 |
U363080
JMi-277/CS1de197
CS1/197 aa
KU363081
JMi-277/CS1de202
CS1/202 aa
KU363082
JMi-277fSnorCo11
Full S/no
KU363111
KU363122
JMi-277fSnorCo12
Full S/no
KU363112
KU363123
JMi-277fSnorCo13
Full S/no
KU363113
KU363124
JMi-277fSde197Co26
Full S/197 aa
KU363114
KU36
| 1 |
48
JAi-29
Primary outbreak
ToB
Aichi
Apr-14
JAi-29/CS1nor
CS1/no
KU363049
JAi-29/CS1de203
CS1/203 aa
KU363050
JAi-29/CS1de204
CS1/204 aa
KU363051
JAo-56
Primary outbreak
Mi
Aomori
May-14
JAo-56/CS1de194
CS1/194 aa
KU363052
JAo-56/CS1de212
CS1/212 aa
KU363053
JAo-
| 1 |
-295fSde197Co5
Full S/197 aa
KU363118
KU363129
JKa-295fSde197Co8
Full S/ 197 aa
KU363120
KU363131
JKa-295fSde215Co6
Full S/ 215 aa
KU363119
KU363130
JAi-312
Second outbreak
Tom
Aichi
Jan-15
JAi-312/CS1nor
CS1/ no
KU363104
JAi-312/CS1de194
CS1/194 aa
KU363105
JAi-
| 1 |
a et al.
2012). Paired-end sequencing with reads of 75 and 250
nucleotides in length were performed with at least 10X
coverage. All raw and processed data are available
through the European Nucleotide Archive under acces-
sion numbers PRJEB22479 and PRJEB25675 for
| 1 |
Wiley Online Library for rules of use; OA articles are governed by the applicable Creative Commons License
5622 |
WAN et al.
submitted to the National Center for Biotechnology Information
(NCBI) database (accession numbers: MN107084MN107151,
MN335287MN335
| 1 |
g386/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445091
2019 April 26
A/shorebird/Liaoning/dandong603/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445092
2019 April 26
A/shorebird/Liaoning/dandong786/2019(H7N4)
1
Shorebird (species unknown)
EPI_ISL_445093
2019
| 1 |
unding bodies had no role in the design of the study or
collection, analysis, or interpretation of data.
Availability of data and materials
New sequencing data, genome assemblies, and annotations have been
deposited under NCBI BioProject accession PRJNA396570 (htt
| 1 |
web.lunenfeld.ca/
Project 40 (BET rewiring)
Crystal structure of BRD4/BD1 with
an H3 (K9ac/K14ac) peptide
This paper; http://www.pdb.org
PDB: 5NNC
Crystal structure of BRD4/BD1 with
an H3 (K9ac/pS10/K14ac) peptide
This paper; http://www.pdb.org
PDB: 5NND
Crys
| 1 |
19 February 2022
Accepted 25 May 2022
Edited by K. Djinovic-Carugo, University of
Vienna, Austria
Keywords: L-asparaginases; Ntn-hydrolases;
random mutagenesis; leukemia.
PDB references: EcAIII, wild type, 7qy6;
RDM1-3, 7qtc; RDM1-8, 7qq8; RDM1-12, 7qsf;
RDM
| 1 |
use, distribution, and reproduction in any
medium, provided the original author and source are
credited.
Data Availability Statement: All Nrf2 sequence files
are available from the GeneBank database
(accession number(s) KT345715, KT345716,
KT345717, KT345718, KT3
| 1 |
97
CS1/197 aa
KU363098
JKa-295/CS1de201
CS1/201 aa
KU363099
JKa-295/CS1de204
CS1/204 aa
KU363100
JKa-295/CS1de205
CS1/205 aa
KU363101
JKa-295/CS1de211
CS1/211 aa
KU363102
JKa-295/CS1de216
CS1/216 aa
KU363103
JKa-295fSde194Co25
Full S/194 aa
KU363121
KU363132
JKa-
| 1 |
i-278
Second outbreak
Is
Miyazaki
Feb-14
JMi-278/CS1nor
CS1/no
KU363083
JMi-278/CS1del194
CS1/194 aa
KU363084
JMi-278/CS1del203
CS1/203 aa
KU363085
JMi-278/CS1de214
CS1/214 aa
KU363086
JMi-283
Second outbreak
Oi
Miyazaki
Jun-14
JMi-283/CS1nor
CS1/no
KU363087
JMi-
| 1 |
ug Bank
PIK3R1,
PIK3R2,
PIK3R3,
PIK3R4,
PIK3R5,
PIK3R6,
PIK3C2A,
PIK3C2B,
PIK3C2G,
PIK3C3
ROS
NOX1,
NOX3,
NOX4
Fostamatinib
Approved
Drug Bank
NOX2
Dextromethorphan
Approved
Drug Bank
Tetrahydroisoquino
lines
(CHEMBL3733336
,
CHEMBL3347550,
CH
| 1 |
KU363099
JKa-295/CS1de204
CS1/204 aa
KU363100
JKa-295/CS1de205
CS1/205 aa
KU363101
JKa-295/CS1de211
CS1/211 aa
KU363102
JKa-295/CS1de216
CS1/216 aa
KU363103
JKa-295fSde194Co25
Full S/194 aa
KU363121
KU363132
JKa-295fSde197Co4
Full S/197 aa
KU363117
KU363128
JKa-
| 1 |
Y.L. and R.G. performed the X-ray
crystallographic measurements. H.H. conducted theoretical studies. R.K. conceived and
supervised the study, and drafted the manuscript. All authors contributed to discussions.
Additional information
Accession codes. CCDC 14429101442
| 1 |
genome sequence
from YG 417.13
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168330
Publicly available at
NCBI GenBank
(accession no:
KT168330)
Heintzman PD,
Shapiro B
2017
Mitochondrial genome sequence
from YG 76.2
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168331
Publ
| 1 |
/no
KU363079
JMi-277/CS1de194
CS1/194 aa
KU363080
JMi-277/CS1de197
CS1/197 aa
KU363081
JMi-277/CS1de202
CS1/202 aa
KU363082
JMi-277fSnorCo11
Full S/no
KU363111
KU363122
JMi-277fSnorCo12
Full S/no
KU363112
KU363123
JMi-277fSnorCo13
Full S/no
KU363113
KU363124
JMi-
| 1 |
s further supported by funds from the EPFL, AgingX
(SystemsX.ch), and the SNSF (CRSI33_127485).
Availability of data and materials
The RNA-seq and ChIP-seq datasets supporting the conclusions of this article
are available in the NCBI GEO repository, GSE118622 [57]
| 1 |
s://massive.ucsd.edu/
ProteoSAFe/static/massive.jsp
MSV000081006
MS data of BRD3 mutant BioID
https://massive.ucsd.edu/
ProteoSAFe/static/massive.jsp
MSV000081001
MS data of BRD9 fragment AP-MS
https://massive.ucsd.edu/
ProteoSAFe/static/massive.jsp
MSV000080981
MS d
| 1 |
Inc., Internal Research Funding
who approved the design of the study and collection, analysis, interpretation
of data and final manuscript.
Availability of data and materials
Data generated are available in GenBank: BioProject PRJNA593570;
BioSample SAMN13481355 for
| 1 |
e, which permits
unrestricted use, distribution, and reproduction in any
medium, provided the original author and source are
credited.
Data Availability Statement: All Nrf2 sequence files
are available from the GeneBank database
(accession number(s) KT345715, KT3
| 1 |
provided the original author and source are
credited.
Data Availability Statement: All Nrf2 sequence files
are available from the GeneBank database
(accession number(s) KT345715, KT345716,
KT345717, KT345718, KT345719, KT345720,
KT345721, KT345722, KT345723, KT3
| 1 |
Biolabs (NEB), USA) with overnight incubation
at 56 C with proteinase K. The quality of the extraction
was verified by a PCR amplification of the host COI
gene (Table S6). A total of 20 sequences were deposited
in the GenBank Data Library: MN923050-MN923069
(Tab
| 1 |
, NIH P20GM121342 (KEP), NIH
R15DE029945 (KEP), NSF IOS-1456765 (RBR) and an Arnold and
Mabel Beckman Institute Young Investigator Award (RBR).
DATA AVAILABILITY STATEMENT
Raw sequence data are available at https://www.ncbi.nlm.nih.
gov/bioproject/PRJNA955776. Add
| 1 |
4/CS1de202
CS1/202 aa
KU363062
JKa-230
Primary outbreak
Kac1
Kagoshima
Jul-14
JKa-230/CS1nor
CS1/no
KU363063
JKa-230/CS1de194
CS1/194 aa
KU363064
JKa-230/CS1de214
CS1/214 aa
KU363065
JMi-231
Second outbreak
Ho
Miyazaki
Mar-2014
JMi-231/CS1nor
CS1/no
KU363066
JMi-
| 1 |
s paper; http://www.pdb.org
PDB: 6G0Q
Crystal structure of BRD4/BD1 with
a POL2RA (K775ac/K778ac) peptide
This paper; http://www.pdb.org
PDB: 6G0R
Crystal structure of BRD4/BD1 with
a SIRT7 (K272ac/K275ac) peptide
This paper; http://www.pdb.org
PDB: 6G0S
(Con
| 1 |
, rev
2fcb244) and Gene Set Enrichment Analysis (GSEA,
v4.0.3) [88, 89]. One sample was excluded due to anom-
alously different transcript counts (89-5, a PBS.3WK
replicate). Raw transcriptomic data is accessible via the
NIH Gene Expression Omnibus (GSE144193) and
| 1 |
A, New Haven,
CT). For the generation of these cDNA libraries, 900 ng
of high quality (RNA integrity number > 7.0) total RNA
samples was used. The Sequence Read Archive number
at NCBI of infected cardia is SRP093558 and that of
infected probosces is PRJNA354110 [30]
| 1 |
nd does not
imply endorsement by the U.S. Government.
CONFLICT OF INTEREST
The authors have declared no conflict of interest for this article.
DATA AVAILABILITY STATEMENT
16S rRNA sequences have been deposited in the Sequence Read
Archive at NCBI (PRJNA794822). Me
| 1 |
that of the
present study, and details of the study protocol were
previously published [32]. All microarray data have
been deposited in the National Center for Biotechnology
Gene Expression Omnibus database (accession numbers
[GEO:GSE26440] and [GEO:GSE26378]).
R
| 1 |
U363044
JAi-23/CS1de202
CS1/202 aa
KU363045
JAi-23/CS1de204
CS1/204 aa
KU363046
JAi-23/CS1de209
CS1/209 aa
KU363047
JAi-23/CS1de214
CS1/214 aa
KU363048
JAi-29
Primary outbreak
ToB
Aichi
Apr-14
JAi-29/CS1nor
CS1/no
KU363049
JAi-29/CS1de203
CS1/203 aa
KU363050
JAi-
| 1 |
al. 2011, Oyola et al.
2012). Paired-end sequencing with reads of 75 and 250
nucleotides in length were performed with at least 10X
coverage. All raw and processed data are available
through the European Nucleotide Archive under acces-
sion numbers PRJEB22479 and
| 1 |
nd then stored at 80 C prior to RNA
extraction. RNA extraction and transcription analysis
were performed as previously described [22]. Resulting
microarray data were uploaded to the Gene Expression
Omnibus (GEO) database under Accession Number
GSE72765. Hie
| 1 |
igh metabolic plasticity of the MAST
species analyzed here, which might facilitate their existence
in the oceans as very abundant bacterial grazers.
Data availability
Sequencing reads have been deposited at the GenBank
Database under Project numbers PRJEB6603 for
| 1 |
testudo (T)
Apalone spinifera
*MHNG-PLAT-35320
FM956082
de Chambrier et al. 2009a
6.2
Thaumasioscolex didelphidis (T)
Didelphis marsupialis
*MHNG-PLAT-28993
AJ275065
de Chambrier et al. 2004c
8.4
Travassiella jandia (T)
Zungaro jahu
MHNG-PLAT-31175
KP729400
This
| 1 |
n type of PEDV.
Table 3. (Continued)
Sample
Outbreak
Farm
Prefecture
Collected time
PEDV strains
Sequence/ deletion
S geneacce No
ORF3 geneacce No
JMi-278
Second outbreak
Is
Miyazaki
Feb-14
JMi-278/CS1nor
CS1/no
KU363083
JMi-278/CS1del194
CS1/194 aa
KU363084
JMi-
| 1 |
un-14
JMi-238/CS1nor
CS1/no
KU363072
JMi-238/CS1de194
CS1/194 aa
KU363073
JMi-238/CS1de202
CS1/202 aa
KU363074
JMi-238/CS1de214
CS1/214 aa
KU363075
JMi-239
Second outbreak
Sa
Miyazaki
Jul-14
JMi-239/CS1nor
CS1/no
KU363076
JMi-239/CS1de202
CS1/202 aa
KU363077
JMi-
| 1 |
input
s.e.m. ChIP libraries were prepared using ChIP DNA ac-
cording to the BGISEQ-500ChIP-Seq library preparation
protocol. In-depth whole-genome DNA sequencing was
performed by BGI (Shenzhen, China). ChIP-seq data were
deposited in the NCBI SRA: SRP149488 (htt
| 1 |
entary material
Supplementary material is available online at Evolution.
Data availability
The sequence reads have been submitted to the Sequence
Read Archive (SRA) of the National Center for Biotechnology
Information (NCBI) under accession number PRJNA1009132.
Th
| 1 |
nome sequence
from YG 133.16
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168318
Publicly available at
NCBI GenBank
(accession no:
KT168318)
Heintzman PD,
Shapiro B
2017
Mitochondrial genome sequence
from YG 29.169
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168319
Publ
| 1 |
104
JAi-312/CS1de194
CS1/194 aa
KU363105
JAi-312/CS1de197
CS1/197 aa
KU363106
JAi-312/CS1de214
CS1/214 aa
KU363107
JAi-318
Third outbreak
At
Aichi
Jun-15
JAi-318/CS1nor
CS1/no
KU363108
JAi-318/CS1de194
CS1/194 aa
KU363109
JAi-318/CS1de197
CS1/204 aa
KU363110
: PE
| 1 |
phalus gobiorum
Neogobius fluviatilis
IPCAS C-299
KP729393
This paper
19.7
Proteocephalus hemioliopteri
Phractocephalus hemioliopterus
*MHNG-PLAT-21889
AJ388622
Zehnder et al. 1999
11.8
Proteocephalus kuyukuyu
Pterodoras granulosus
*MHNG-PLAT-66572
KP729388
This
| 1 |
999
3.3
Ophiotaenia cf. perspicua
Nerodia rhombifer
*MHNG-PLAT-35370
KP729415
This paper
2.3
Ophiotaenia sanbernardinensis
Helicops leopardinus
*MHNG-PLAT-18251
AJ388637
Zehnder et al. 1999
5.0
Ophiotaenia saphena
Lithobates pipiens
*MHNG-PLAT-32851
KP729402
This
| 1 |
.5
Australotaenia bunthangi
Enhydris enhydris
*MHNG-PLAT-75447
KP729409
This paper
5.0
Barsonella lafoni (T)
Clarias gariepinus
*MHNG-PLAT-49399
FM955143
de Chambrier et al. 2009b
11.5
Brayela karuatayi (T)
Platynematichthys notatus
*MHNG-PLAT-63128
KP729406
This
| 1 |
pplied regarding the deposition of DNA sequences:
The 16s RNA sequences of compost for Agaricus bisporus production are available at
GenBank: PRJNA664798.
BioSample: SAMN16233641, SAMN16233642, SAMN16233643, SAMN16233644,
SAMN16233645, SAMN16233646, SAMN16233647, SAM
| 1 |
nd sequencing with reads of 75 and 250
nucleotides in length were performed with at least 10X
coverage. All raw and processed data are available
through the European Nucleotide Archive under acces-
sion numbers PRJEB22479 and PRJEB25675 for the RJF,
PRJEB24169 for
| 1 |
S1nor
CS1/no
KU363079
JMi-277/CS1de194
CS1/194 aa
KU363080
JMi-277/CS1de197
CS1/197 aa
KU363081
JMi-277/CS1de202
CS1/202 aa
KU363082
JMi-277fSnorCo11
Full S/no
KU363111
KU363122
JMi-277fSnorCo12
Full S/no
KU363112
KU363123
JMi-277fSnorCo13
Full S/no
KU363113
KU36
| 1 |
y file
1. MTIII and other element measurement data are in Figure 2source data 1, and the Rscript used
for morphometric analysis is in the DRYAD database (Heintzman et al., 2017). MtDNA genome
sequences have been deposited in Genbank under accessions KT168317-KT16
| 1 |
JKa-295/CS1de194
CS1/194 aa
KU363097
JKa-295/CS1de197
CS1/197 aa
KU363098
JKa-295/CS1de201
CS1/201 aa
KU363099
JKa-295/CS1de204
CS1/204 aa
KU363100
JKa-295/CS1de205
CS1/205 aa
KU363101
JKa-295/CS1de211
CS1/211 aa
KU363102
JKa-295/CS1de216
CS1/216 aa
KU363103
JKa-
| 1 |
dosymbiont strain of Atemnus
sp. Specimen K5 (genome: WQMQ00000000); BioSample SAMN14519337 for
Wolbachia endosymbiont strain of Atemnus sp. Specimen K3 (genome:
JAAXCS000000000). The raw data are available in GenBank as Sequence Read
Archive (SRA): SRX7550679 to S
| 1 |
into PHASE format. Homozygotes were treated as haploid
and heterozygotes were treated as diploid samples for haplotype
identification.
Data availability
All sequences were submitted to the NCBI SRA associated with
BioProject numbers PRJNA473780 and PRJNA488050. Sup
| 1 |
BioSample: SAMN16233641, SAMN16233642, SAMN16233643, SAMN16233644,
SAMN16233645, SAMN16233646, SAMN16233647, SAMN16233648, SAMN16233649,
SAMN16233650, SAMN16233651, SAMN16233652, SAMN16233653, SAMN16233654,
SAMN16233655, SAMN16233656, SAMN16233657, SAMN16233658, SAM
| 1 |
ted time
PEDV strains
Sequence/ deletion
S geneacce No
ORF3 geneacce No
JMi-278
Second outbreak
Is
Miyazaki
Feb-14
JMi-278/CS1nor
CS1/no
KU363083
JMi-278/CS1del194
CS1/194 aa
KU363084
JMi-278/CS1del203
CS1/203 aa
KU363085
JMi-278/CS1de214
CS1/214 aa
KU363086
JMi-
| 1 |
pporting Information is available free of charge at
https://pubs.acs.org/doi/10.1021/jacs.2c06519.
Synthesis, spectroscopic characterization, crystallo-
graphic details, magnetic property measurements, and
computational details (PDF)
Accession Codes
CCDC 2169273 and
| 1 |
Mi-278/CS1del203
CS1/203 aa
KU363085
JMi-278/CS1de214
CS1/214 aa
KU363086
JMi-283
Second outbreak
Oi
Miyazaki
Jun-14
JMi-283/CS1nor
CS1/no
KU363087
JMi-283/CS1de194
CS1/194 aa
KU363088
JMi-283/CS1de203
CS1/203 aa
KU363089
JMi-283/CS1de214
CS1/214 aa
KU363090
JKa-
| 1 |
an-14
JMi-295/CS1nor
CS1/no
KU363096
JKa-295/CS1de194
CS1/194 aa
KU363097
JKa-295/CS1de197
CS1/197 aa
KU363098
JKa-295/CS1de201
CS1/201 aa
KU363099
JKa-295/CS1de204
CS1/204 aa
KU363100
JKa-295/CS1de205
CS1/205 aa
KU363101
JKa-295/CS1de211
CS1/211 aa
KU363102
JKa-
| 1 |
nome sequence
from YG 378.5
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168323
Publicly available at
NCBI GenBank
(accession no:
KT168323)
Heintzman PD,
Shapiro B
2017
Mitochondrial genome sequence
from YG 404.478
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168324
Publ
| 1 |
JMi-231/CS1de214
CS1/214 aa
KU363068
JMi-235
Third outbreak
Ho
Miyazaki
Jun-14
JMi-235/CS1nor
CS1/no
KU363069
JMi-235/CS1de201
CS1/201 aa
KU363070
JMi-235/CS1de203
CS1/203 aa
KU363071
JMi-238
Second outbreak
Te
Miyazaki
Jun-14
JMi-238/CS1nor
CS1/no
KU363072
JMi-
| 1 |
JMi-239
Second outbreak
Sa
Miyazaki
Jul-14
JMi-239/CS1nor
CS1/no
KU363076
JMi-239/CS1de202
CS1/202 aa
KU363077
JMi-239/CS1de203
CS1/203 aa
KU363078
JMi-277
Second outbreak
No
Miyazaki
May-14
JMi-277/CS1nor
CS1/no
KU363079
JMi-277/CS1de194
CS1/194 aa
KU363080
JMi-
| 1 |
enome sequence
from YG 130.55
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168326
Publicly available at
NCBI GenBank
(accession no:
KT168326)
Heintzman PD,
Shapiro B
2017
Mitochondrial genome sequence
from YG 198.1
https://www.ncbi.nlm.
nih.gov/nuccore/
KT168327
Publ
| 1 |
CS1de203
CS1/203 aa
KU363078
JMi-277
Second outbreak
No
Miyazaki
May-14
JMi-277/CS1nor
CS1/no
KU363079
JMi-277/CS1de194
CS1/194 aa
KU363080
JMi-277/CS1de197
CS1/197 aa
KU363081
JMi-277/CS1de202
CS1/202 aa
KU363082
JMi-277fSnorCo11
Full S/no
KU363111
KU363122
JMi-
| 1 |
Pro 3.0.6 Software
(Axon Instruments (now Molecular Devices), Union City,
California, USA) to produce two TIFF images at 532 nm
and 635 nm. The microarray data have been submitted
to the Gene Expression Omnibus database, with acces-
sion number [GEO:GSE24237].
St
| 1 |
(URL:
https://www.ncbi.nlm.nih.gov/geo)
under
the
super
series accession GSE110720. Coding exome RNA-Seq
data is deposited under accession GSE110716, Poly-A
RNA-Seq data is deposited under accession GSE110717,
RRBS data is deposited under accession GSE110718 and
| 1 |
5
JMi-69/CS1de194
CS1/194 aa
KU363056
JMi-69/CS1de204
CS1/204 aa
KU363057
JMi-69/CS1de214
CS1/214 aa
KU363058
JMi-124
Primary outbreak
Ok
Miyazaki
Mar-14
JMi-124/CS1nor
CS1/no
KU363059
JMi-124/CS1de194
CS1/194 aa
KU363060
JMi-124/CS1de201
CS1/201 aa
KU363061
JMi-
| 1 |
G
No
R
Q
E
D
No
ESEV
A/shorebird/Liaoning/dandong386/2019(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
A/shorebird/Liaoning/dandong603/2019(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
A/shorebird/Liaoning/dandong786/2019(H7N4)
PELPKGR
G
Q
G
No
R
Q
E
D
No
ESEV
EPI_ISL_376123_A/Ji
| 1 |
assembly and annotation, as well as the raw reads, are available via BioProject
PRJNA700828. The assembled genomes accession number is GCA_024582855.4. The
new PacBio and Illumina raw reads can be found under the accession numbers
SRX23571306 and SRX23584000, res
| 1 |
hyper and pheatmap were used
to conduct PCA analysis, KEGG pathway enrichment
and construction of heat maps, respectively. The RNA-
Seq data of the present study had been deposited at the
BIG genome sequence archive (GSA) under Bioproject
identifier
PRJCA001964
with
| 1 |
e, dnaA, coxA, fbpA, gatB and ftsZ) as described in
Lefoulon et al. [14] (Table S6). For some specimens,
nested PCR amplification was necessary to obtain suffi-
cient PCR product. A total of 14 sequences were depos-
ited
in
the
GenBank
Data
Library:
MN931247
to
M
| 1 |
l. 1999
9.7-10.3
Regoella brevis (T)
Pseudoplatystoma reticulatum
*MHNG-PLAT-79184
KP729389
This paper
11.5
Ritacestus ritaii (T)
Rita rita
*MHNG-PLAT-63242
JX477447
Ash et al. 2012
17.7
Rostellotaenia nilotica (T)
Varanus niloticus
*MHNG-PLAT-34195
KP729398
This
| 1 |
dagascariensis)
EPI_ISL_445051
2019 April 26
A/eastern curlew/Liaoning/dandong1144/2019(H7N4)
3
Eastern curlew (Numenius madagascariensis)
EPI_ISL_445001
2019 April 26
A/little curlew/Liaoning/dandong142/2019(H7N4)
4
Little curlew (Numenius minutus)
EPI_ISL_445089
Infl
| 1 |
91
911
Received 19 February 2022
Accepted 25 May 2022
Edited by K. Djinovic-Carugo, University of
Vienna, Austria
Keywords: L-asparaginases; Ntn-hydrolases;
random mutagenesis; leukemia.
PDB references: EcAIII, wild type, 7qy6;
RDM1-3, 7qtc; RDM1-8, 7qq8; RDM
| 1 |
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