Bayern beat Borussia Moenchengladbach 3-0 on Saturday to bag their 13th win from 13 matches across all competitions this season.
Liverpool overcame an early scare and came from a goal down to claim a 3-1 win at Austria's LASK Linz.
Manchester United breezed into the next round with a 6-1 aggregate win over Club Brugge
Liverpool will take on LASK, Union Saint-Gilloise and Toulouse in the Europa League group stage while debutants Brighton & Hove Albion will face Ajax Amsterdam and Olympique de Marseille following the draw on Friday.
Brighton secured their second victory of the competition with a comfortable win at Ajax thanks to goals from Ansu Fati and Simon Adingra.
IMAGES from the Europa League matches played on Thursday.
Former Europa League winners Manchester United booked a quarter-final spot in the tournament after their second-string side laboured to a 2-1 home win over LASK Linz on Wednesday to seal a 7-1 aggregate rout of the Austrian side.
Jose Mourinho's side top Group G with a maximum nine points, three clear of second-placed Slavia.
Rennes denied late Europa League equaliser due to little-known rule
London sides Tottenham Hotspur and Arsenal made winning starts as did fellow Premier League club Leicester City.
Seven-time European champions AC Milan hit back from two goals down against Celtic to claim a 4-2 victory that sent them into the Europa League knockout phase on Thursday as they were among 14 teams to progress in Europe's second-tier competition.
Ajax, semi-finalists last season, came from behind to beat PAOK 3-2 for a 5-4 aggregate win over the Greeks while Red Star knocked out FC Copenhagen on penalties after a bizarre shootout involving 22 spot-kicks.
Belgian league leaders Antwerp secured a shock 1-0 win over Tottenham Hotspur and AC Milan extended their unbeaten run to 23 games as they won 3-0 against Sparta Prague in the Europa League on Thursday, while Arsenal cruised to a 3-0 win over Dundalk.
Paul Pogba believes the Red Devils have right balance to win FA Cup and Europa League crowns.
Manchester United are fifth in the Premier League standings with 58 points, one behind Leicester City, who occupy the final Champions League spot with four games to play.
Images from Wednesday's Champions League matches, between Real Madrid and Paris St Germain, and Manchester City and Sporting CP
Manchester United, Sevilla and Celtic led a parade of clubs with continental pedigree to book the first places in this season's Europa League knockout stage.
Harry Kane netted his 200th goal for Tottenham Hotspur as they won 3-1 at Ludogorets and AC Milan's 24-match unbeaten run ended
Klopp has led Liverpool to back-to-back Champions League finals but is adamant that their impressive recent track record does not make them the title favourites.
Arsenal might be struggling in the Premier League but they are 100 per cent in Group B of the Europa League
Manchester United boss Ole Gunnar Solskjaer says the next step in his side's development would be securing a trophy as they look to cap off a promising season by winning the Europa League. United, who finished third in the Premier League, hold a 5-0 lead over Austrian side LASK Linz heading into the second leg of their last-16 tie which will be played without fans at Old Trafford on Wednesday.
Leaders Porto suffered a shock 2-1 defeat at Famalicao as Portugal's Primeira Liga became the latest league to return to action following the coronavirus stoppage on Wednesday.
Kazakhstan's Astana fought back to beat a youthful Manchester United side 2-1 at home, Arsenal's woes continued as Frankfurt's Daichi Kamada scored twice to secure a 2-1 win.
Manchester United took a big step towards the Europa League quarter-finals by thrashing Austrian side LASK Linz 5-0 on Thursday in their last 16 first-leg tie at an empty Linzer Stadium due to the coronavirus pandemic.
Arsenal teenager Bukayo Saka scored his first goal for the club as they beat 10-man Eintracht Frankfurt 3-0, while Manchester United's 17-year-old Mason Greenwood secured a 1-0 win over FC Astana as the Europa League group stage began on Thursday.
Barcelona's Champions League last-16 second leg match with Napoli scheduled for March 18 will take place without spectators due to fears over the spread of the coronavirus, a club spokesman said on Tuesday. The match will take place at Camp Nou after a 1-1 draw in Napoli, but no supporters will be allowed to enter the stadium.
Arsenal suffered a shock Europa League exit to Olympiakos Piraeus on away goals after a 2-1 extra-time home defeat, while Manchester United and Wolverhampton Wanderers cruised into the last 16 with emphatic aggregate wins on Thursday.
Arsenal's young guns continued to shine as they dismantled Standard Liege 4-0 on a hectic night of Europa League action that produced a full house of Spanish victories on Thursday. A summary of the matches.
On a good night for English clubs in the Europa League, Manchester United hammered AZ Alkmaar 4-0, while Wolverhampton Wanderers also thrashed Besiktas 4-0 in Group K, and Arsenal came from two goals down to draw 2-2 away to Standard Liege and finish first in their pool. The upset of the night came in Group J as Crivelli scored a 90th-minute winner against Borussia Moenchengladbach to send Basaksehir through and knock the Germans out, with AS Roma grabbing the runner-up spot thanks to a 2-2 home draw with Wolfsberger as the Europa League group stage concluded on Thursday.
Martial scored his 23rd goal for United in all competitions this season against LASK Linz in Wednesday's Europa League last-16 victory.
Unai Emery's side were heading for a demoralising defeat, three days after losing meekly to Sheffield United in the Premier League, but substitute Pepe's late intervention kept the Gunners top of Group F with a maximum nine points.