St Cuthbert's church in Hamilton, South Lanarkshire made the decision yesterday following the announcement on Sunday of Scotland's first case of coronavirus.
The church's “precautionary measures” include emptying holy water stoops and suspending the sign of peace.
Holy Communion will also be received in the hand rather than on the tongue and the 'lay faithful will not receive the precious blood'.
Following the diagnosis of a person in Tayside with the deadly illness, yesterday first minister Nicola Sturgeon warned of the "likelihood of a significant outbreak".
Bishop of Motherwell, Rev Joseph Toal, outlined the guidelines, said church gatherings will be 'limited'.
He said: "As the possibility of the coronavirus affecting us in Scotland appears to be growing, I think it is prudent to make comment on it and to take some precautionary measures in our churches.
"First it is necessary to pray - both for those already suffering because of this virus, and then to pray for God's help that we may be protected from all harm.
"It is certainly an intention that we should pray fervently about this Lent.
"Having heard of the consequences of an outbreak of the virus in other countries, particularly in the restriction of movement and the closure of public buildings, we can foresee that restrictions will be put in place in Scotland
also and I would expect that gatherings in churches will be limited.
"We must hope and pray that our daily lives will not be restricted because this new disease has come among us.
"As we are aware of the danger of disruption to our lives as well as the health risks, it is prudent to take steps now to try to prevent the spread of the virus if it does come to Scotland."
Calling for greater hygiene in the church community, Rev Toal said those experiencing 'cold or flu-like symptoms' shouldn't attend mass.
He said: "All Ministers of the Eucharist, Ordinary and Extraordinary, must wash or sanitise their hands before distributing communion - at Mass and other Eucharistic Services, and at the homes of those they bring communion to.
"We all must comply with this and be seen to do it.
"Only the Priest Celebrant or Assisting Deacon should purify the Sacred Vessels - paten, chalice and ciborium - used at Mass.
"Sacristan, and others with responsibility in setting up for Mass, must wash their hands thoroughly before touching the Sacred Vessels and the hosts to be consecrated at Mass.
"In general, therefore, I encourage everyone to take good care in regard to hygiene while participating in Church Services and other activities.
"It would be prudent also not to attend Mass if you are suffering from a cold or flu-like symptoms."