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nature research | reporting summary
October 2018
Corresponding author(s):
Katherine Ferrara
Last updated by author(s):
March 21, 2020
Reporting Summary
Nature Research wishes to improve the reproducibility of the work that we publish. This form provides structure for consistency
and transparency
in reporting. For further information on Nature Research policies, see
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and the
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.
Statistics
For all statistical analyses, confirm that the following items are present in the figure legend, table legend, main text, or Me
thods section.
n/a
Confirmed
The exact sample size (
n
) for each experimental group/condition, given as a discrete number and unit of measurement
A statement on whether measurements were taken from distinct samples or whether the same sample was measured repeatedly
The statistical test(s) used AND whether they are one- or two-sided
Only common tests should be described solely by name; describe more complex techniques in the Methods section.
A description of all covariates tested
A description of any assumptions or corrections, such as tests of normality and adjustment for multiple comparisons
A full description of the statistical parameters including central tendency (e.g. means) or other basic estimates (e.g. regress
ion coefficient)
AND variation (e.g. standard deviation) or associated estimates of uncertainty (e.g. confidence intervals)
For null hypothesis testing, the test statistic (e.g.
F
,
t
,
r
) with confidence intervals, effect sizes, degrees of freedom and
P
value noted
Give P values as exact values whenever suitable.
For Bayesian analysis, information on the choice of priors and Markov chain Monte Carlo settings
For hierarchical and complex designs, identification of the appropriate level for tests and full reporting of outcomes
Estimates of effect sizes (e.g. Cohen's
d
, Pearson's
r
), indicating how they were calculated
Our web collection on
statistics for biologists
contains articles on many of the points above.
Software and code
Policy information about
availability of computer code
Data collection
PET/CT data was collected with Inveon Acquisition Workspace (Siemens) . Microscope data collected with LAS X (Leica) and SlideB
ook6
(3i). qPCR data collected from CFX Maestro (Bio-Rad)
Data analysis
Inveon Reseach Workplace 4.2 (IRW, Siemens) was used for PET/CT data analysis. Microsoft Excel (ver. 16.35), and GraphPad Prism
8 are
used for general data and statistical analysis. ImageJ (ver. 2.0). PyMOL 2.0 (Molecular Graphics System) was used to process th
e structure
of capsid. FlowJo v10.1 (Treestar) was used for data analyses of results from flow cytometry.
For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published lit
erature, software must be made available to editors/reviewers.
We strongly encourage code deposition in a community repository (e.g. GitHub). See the Nature Research
guidelines for submitting code & software
for further information.
Data
Policy information about
availability of data
All manuscripts must include a
data availability statement
. This statement should provide the following information, where applicable:
- Accession codes, unique identifiers, or web links for publicly available datasets
- A list of figures that have associated raw data
- A description of any restrictions on data availability
The Mus musculus database from the Universal Protein Resource (UniProt, http://www.uniprot.org) along with the sequences of cap
sid proteins was used for the
process of the raw data fiiles from mass spectrometer. Protein Data Bank (PDB ID:3Ux1) was used to display capsid structure. Th
e authors declare that image and
quantitative data supporting the findings of this study are available within the paper and its supplementary information files.
The raw PET images and associated
data that support the findings of this study are available from the corresponding author upon reasonable request.
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nature research | reporting summary
October 2018
Field-specific reporting
Please select the one below that is the best fit for your research. If you are not sure, read the appropriate sections before m
aking your selection.
Life sciences
Behavioural & social sciences
Ecological, evolutionary & environmental sciences
For a reference copy of the document with all sections, see
nature.com/documents/nr-reporting-summary-flat.pdf
Life sciences study design
All studies must disclose on these points even when the disclosure is negative.
Sample size
Sample size of each group in experiment is presented in results and methods.
Data exclusions
One data point at 4 hours in Fig 3F was excluded due to the insufficient volume of blood collected. One tail vein injection fai
led in a mouse
injected with PHP.eB. This animal was excluded from data in Fig 3F left bar graph.
Replication
Replication is described in the Statistics and Reproducibility section.
Randomization
Allocation was random.
Blinding
The technicians who performed the studies were blinded to the biological groups.
Reporting for specific materials, systems and methods
We require information from authors about some types of materials, experimental systems and methods used in many studies. Here,
indicate whether each material,
system or method listed is relevant to your study. If you are not sure if a list item applies to your research, read the approp
riate section before selecting a response.
Materials & experimental systems
n/a
Involved in the study
Antibodies
Eukaryotic cell lines
Palaeontology
Animals and other organisms
Human research participants
Clinical data
Methods
n/a
Involved in the study
ChIP-seq
Flow cytometry
MRI-based neuroimaging
Eukaryotic cell lines
Policy information about
cell lines
Cell line source(s)
ATCC (HEK 293T)
Authentication
Karyotyping, morphology, and STR testing for authentication on the ventor's end (ATTC). Information on karyotyping and
morphology is located here: https://www.atcc.org/products/all/CRL-1573.aspx#characteristics. In addition, ATCC does short
tandem repeat (STR) profiling to confirm cell identity - which for our cells is located here: https://www.atcc.org/products/all
/
CRL-1573.aspx#specifications
Mycoplasma contamination
PCR of media incubated with these cells returned a negative result for mycoplasma contamination
Commonly misidentified lines
(See
ICLAC
register)
No commonly misidentified cell lines were used in the study.
Animals and other organisms
Policy information about
studies involving animals
;
ARRIVE guidelines
recommended for reporting animal research
Laboratory animals
C57BL/6, BALB/c female mice were purchased from Jackson Laboratory. Average age of mice was 66 days (+-25 days). Mice
were kept at room temperature 20-24 ‘C, humidity 40-60% and 12 hour light/12 dark cycle.
Wild animals
No wild animals were used in the study.
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nature research | reporting summary
October 2018
Field-collected samples
No field collected samples were used in the study.
Ethics oversight
All animal experiments were conducted under an animal use protocol approved by the University of California, Davis,
Institutional Animal Care and Use Committee (IACUC) and Stanford University, Administrative Panel on Laboratory Animal Care
(APLAC)
Note that full information on the approval of the study protocol must also be provided in the manuscript.
Flow Cytometry
Plots
Confirm that:
The axis labels state the marker and fluorochrome used (e.g. CD4-FITC).
The axis scales are clearly visible. Include numbers along axes only for bottom left plot of group (a 'group' is an analysis of
identical markers).
All plots are contour plots with outliers or pseudocolor plots.
A numerical value for number of cells or percentage (with statistics) is provided.
Methodology
Sample preparation
Sample Preparation procedure is described in Methods.
Instrument
Flow cytometer (BD FACScan)
Software
FlowJo (BD)
Cell population abundance
We did not sort cells with these experiments. We collected and assayed the entire population of cultured HEK cells.
Gating strategy
The preliminary FSC/SSC bivariate plot was created in order to eliminate debris (events below 10^3 on the FSC-H log scale and
10^2 on the SSC-H log scale) and specifically select only the HEK 293 cultured cell population using an elliptical gate. After
selecting only the HEK293 cell population, a single-parameter histogram plot was generated to analyze GFP fluorescence
intensity signal in each cell (FL1-H detection channel) along the X-axis and event count along the Y-axis. A range gate was th
en
placed that included any cells expressing signal in the FL1-H detection channel (GFP signal) above background (background
fluorescence signal in the FL1-H channel was determined from the no-treatment control (NTC) samples). The gating figure was
added.
Tick this box to confirm that a figure exemplifying the gating strategy is provided in the Supplementary Information.