I added the Ubuntu package signing keys to my personal key chain.
Afterwards I can verify the the signatures on the lists downloaded by
'apt-get update', e.g.

$ LANG=C gpg --verify 
/var/lib/apt/lists/archive.ubuntu.com_ubuntu_dists_xenial-updates_Release 
gpg: Signature made Fri Oct 21 09:32:24 2016 CEST using DSA key ID 437D05B5
gpg: Good signature from "Ubuntu Archive Automatic Signing Key 
<ftpmas...@ubuntu.com>"
gpg: WARNING: This key is not certified with a trusted signature!
gpg:          There is no indication that the signature belongs to the owner.
Primary key fingerprint: 6302 39CC 130E 1A7F D81A  27B1 4097 6EAF 437D 05B5
gpg: Signature made Fri Oct 21 09:32:24 2016 CEST using RSA key ID C0B21F32
gpg: Good signature from "Ubuntu Archive Automatic Signing Key (2012) 
<ftpmas...@ubuntu.com>"
gpg: WARNING: This key is not certified with a trusted signature!
gpg:          There is no indication that the signature belongs to the owner.
Primary key fingerprint: 790B C727 7767 219C 42C8  6F93 3B4F E6AC C0B2 1F32

So the error message of apt:

W: The repository 'http://archive.ubuntu.com/ubuntu xenial-updates
InRelease' is not signed.

appears to be wrong. The problem appears to be that apt is unable to
recognize/check the perfectly good signature on the downloaded files. Is
there any way to debug the signature verification process?

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Touch seeded packages, which is subscribed to apt in Ubuntu.
https://bugs.launchpad.net/bugs/1592040

Title:
  Can't update repos due to signing problems

Status in apt package in Ubuntu:
  Confirmed

Bug description:
  I can't update the repos through 'sudo apt-get update' due to these
  errors:

  W: Errore GPG: http://archive.ubuntu.com/ubuntu xenial InRelease: Errore 
sconosciuto durante l'esecuzione di apt-key
  W: The repository 'http://archive.ubuntu.com/ubuntu xenial InRelease' is not 
signed.
  N: Data from such a repository can't be authenticated and is therefore 
potentially dangerous to use.
  N: See apt-secure(8) manpage for repository creation and user configuration 
details.
  W: Errore GPG: http://archive.ubuntu.com/ubuntu xenial-updates InRelease: 
Errore sconosciuto durante l'esecuzione di apt-key
  W: The repository 'http://archive.ubuntu.com/ubuntu xenial-updates InRelease' 
is not signed.
  N: Data from such a repository can't be authenticated and is therefore 
potentially dangerous to use.
  N: See apt-secure(8) manpage for repository creation and user configuration 
details.
  W: Errore GPG: http://archive.ubuntu.com/ubuntu xenial-backports InRelease: 
Errore sconosciuto durante l'esecuzione di apt-key
  W: The repository 'http://archive.ubuntu.com/ubuntu xenial-backports 
InRelease' is not signed.
  N: Data from such a repository can't be authenticated and is therefore 
potentially dangerous to use.
  N: See apt-secure(8) manpage for repository creation and user configuration 
details.
  W: Errore GPG: http://archive.ubuntu.com/ubuntu xenial-security InRelease: 
Errore sconosciuto durante l'esecuzione di apt-key
  W: The repository 'http://archive.ubuntu.com/ubuntu xenial-security 
InRelease' is not signed.
  N: Data from such a repository can't be authenticated and is therefore 
potentially dangerous to use.
  N: See apt-secure(8) manpage for repository creation and user configuration 
details.

  The /etc/apt/sources.list contains only the official Ubuntu repo since
  it's untouched from a clean 16.04 install.

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